Pathway Analysis for FABIA (1 ~ 10 Bicluster FABIA, Top 5% features per bicluster)
John Zhuang
2024-06-17
library(multiMiR)## Welcome to multiMiR.
##
## multiMiR database URL has been set to the
## default value: http://multimir.org/
##
## Database Version: 2.3.0 Updated: 2020-04-15library(clusterProfiler)## ## clusterProfiler v4.12.2 Learn more at https://yulab-smu.top/contribution-knowledge-mining/
##
## Please cite:
##
## T Wu, E Hu, S Xu, M Chen, P Guo, Z Dai, T Feng, L Zhou, W Tang, L Zhan,
## X Fu, S Liu, X Bo, and G Yu. clusterProfiler 4.0: A universal
## enrichment tool for interpreting omics data. The Innovation. 2021,
## 2(3):100141##
## Attaching package: 'clusterProfiler'## The following object is masked from 'package:multiMiR':
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## select## The following object is masked from 'package:stats':
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## filterlibrary(org.Hs.eg.db)## Loading required package: AnnotationDbi## Loading required package: stats4## Loading required package: BiocGenerics##
## Attaching package: 'BiocGenerics'## The following objects are masked from 'package:stats':
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## IQR, mad, sd, var, xtabs## The following objects are masked from 'package:base':
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## anyDuplicated, aperm, append, as.data.frame, basename, cbind,
## colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
## get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
## match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
## Position, rank, rbind, Reduce, rownames, sapply, setdiff, table,
## tapply, union, unique, unsplit, which.max, which.min## Loading required package: Biobase## Welcome to Bioconductor
##
## Vignettes contain introductory material; view with
## 'browseVignettes()'. To cite Bioconductor, see
## 'citation("Biobase")', and for packages 'citation("pkgname")'.## Loading required package: IRanges## Loading required package: S4Vectors##
## Attaching package: 'S4Vectors'## The following object is masked from 'package:clusterProfiler':
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## rename## The following object is masked from 'package:utils':
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## findMatches## The following objects are masked from 'package:base':
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## expand.grid, I, unname##
## Attaching package: 'IRanges'## The following object is masked from 'package:clusterProfiler':
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## slice## The following object is masked from 'package:grDevices':
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## windows##
## Attaching package: 'AnnotationDbi'## The following object is masked from 'package:clusterProfiler':
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## select## library(stringr)
library(ggplot2)The results here are deprecated in favor of FABIA variables selected using thres_L (extractBic()).
0. Loading of Results
A. List of all Gene names in the dataset
gene.names = readRDS("data/derived/unique_gene_names.rds")B. Selected Features
Due to long computational time to obtain gene names for microRNA and to execute pathway analysis,
pathway analysis will only be done for 1, 2, 3, 5 and 10-bicluster FABIA.
results.fabia = readRDS("data/sel_features/results_fabia_top_5_percent.rds")
sel.features = results.fabia[1:5]
sel.features## $`1bc`
## $`1bc`$bicluster1
## G6PD.RPPA TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197
## -0.5664688 -0.5495991 0.7662391 0.6351004 0.6196432
## hsa-mir-127 hsa-mir-134 hsa-mir-136 hsa-mir-154 hsa-mir-323
## 0.5556598 0.5553999 0.5555263 0.5772620 0.5936458
## hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370 hsa-mir-376a-1
## 0.6038210 0.6858061 0.6838698 0.5848124 0.5874765
## hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-380 hsa-mir-382
## 0.6262681 0.5575709 0.6136535 0.6782381 0.5608688
## hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485 hsa-mir-487a
## 0.5577673 0.6712205 0.6026199 0.6385659 0.7267015
## hsa-mir-494 hsa-mir-496 hsa-mir-541 hsa-mir-543 hsa-mir-654
## 0.6434824 0.5717559 0.6543345 0.6088287 0.5726739
## hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668 hsa-mir-770
## 0.6905221 0.8365020 0.5754425 0.6625089 0.6163359
## hsa-mir-889
## 0.5576494
##
##
## $`2bc`
## $`2bc`$bicluster2
## G6PD.RPPA FASN.RPPA TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## -0.4947514 0.5768981 -0.5100910 0.5594705 0.4696187
## hsa-mir-1197 hsa-mir-323 hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370
## 0.4989459 0.4716776 0.5510674 0.6231958 0.4669418
## hsa-mir-376a-1 hsa-mir-376a-2 hsa-mir-377 hsa-mir-380 hsa-mir-411
## 0.4945849 0.4993865 0.4885167 0.5553450 0.4690795
## hsa-mir-433 hsa-mir-466 hsa-mir-487a hsa-mir-494 hsa-mir-506
## 0.4727682 -0.4874996 0.5465899 0.4714333 -0.5175712
## hsa-mir-507 hsa-mir-508 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2
## -0.5847532 -0.5014800 -0.7000950 -0.5146970 -0.5416414
## hsa-mir-513b hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3
## -0.4808000 -0.4772028 -0.5008222 -0.5045772 -0.5027646
## hsa-mir-541 hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668
## 0.5403953 0.5126972 0.6667496 0.5263446 0.5101166
## hsa-mir-770
## 0.5519820
##
## $`2bc`$bicluster1
## FN1.R2Gn CTNNB1.R2Gn CCND1.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## -0.4511588 -0.4925327 -0.4626447 0.5297352 0.4314716
## hsa-mir-135b hsa-mir-206 hsa-mir-3166 hsa-mir-3199-1 hsa-mir-323b
## -0.3906779 -0.4583481 -0.4034852 0.4173045 0.3852651
## hsa-mir-329-1 hsa-mir-376a-2 hsa-mir-380 hsa-mir-3923 hsa-mir-411
## 0.4048227 0.3728961 0.3843573 -0.3936415 0.4946514
## hsa-mir-433 hsa-mir-485 hsa-mir-487a hsa-mir-494 hsa-mir-506
## 0.3724767 0.4700524 0.4803354 0.4429761 0.4240878
## hsa-mir-507 hsa-mir-508 hsa-mir-509-1 hsa-mir-509-2 hsa-mir-509-3
## 0.5126687 0.4074888 0.4327297 0.4354988 0.4239098
## hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2 hsa-mir-514-1 hsa-mir-514-2
## 0.5448665 0.3938817 0.4365787 0.4445967 0.4491853
## hsa-mir-514-3 hsa-mir-514b hsa-mir-543 hsa-mir-655 hsa-mir-656
## 0.4515958 0.4196900 0.4407581 0.4666229 0.4984523
## hsa-mir-668
## 0.4212441
##
##
## $`3bc`
## $`3bc`$bicluster2
## G6PD.RPPA FASN.RPPA TTF1.RPPA TGM2.R2Gn SQSTM1.R2Gn
## -0.6514624 0.8737953 -0.6094855 -0.7011726 -0.6331867
## hsa-mir-1185-1 hsa-mir-1197 hsa-mir-329-1 hsa-mir-329-2 hsa-mir-376a-1
## 0.7013345 0.6522884 0.7064830 0.8107564 0.6354677
## hsa-mir-376a-2 hsa-mir-377 hsa-mir-380 hsa-mir-466 hsa-mir-487a
## 0.6617729 0.6303237 0.7212568 -0.6553467 0.7015375
## hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1 hsa-mir-509-2
## -0.7206063 -0.8075650 -0.6905181 -0.6306047 -0.6340692
## hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2 hsa-mir-513b
## -0.6404349 -0.9915946 -0.7202971 -0.7574027 -0.6739789
## hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3 hsa-mir-541
## -0.6583085 -0.7000274 -0.7049369 -0.7023947 0.7012658
## hsa-mir-605 hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668
## -0.6444571 0.6524373 0.8623823 0.6826397 0.6457786
## hsa-mir-770
## 0.7249692
##
## $`3bc`$bicluster3
## GATA3.RPPA IGFBP2.R2Gn FN1.R2Gn CTNNB1.R2Gn CCND1.R2Gn
## -0.9248231 -0.6582546 -0.8641139 -0.9724582 -0.9043804
## hsa-mir-1185-1 hsa-mir-124-3 hsa-mir-135b hsa-mir-206 hsa-mir-2114
## 0.6907430 -0.7375579 -0.6885645 -0.8045228 0.9326673
## hsa-mir-3166 hsa-mir-3199-1 hsa-mir-3655 hsa-mir-3923 hsa-mir-3926-2
## -0.7932514 0.8070724 0.7332915 -0.7798807 0.7178644
## hsa-mir-411 hsa-mir-429 hsa-mir-485 hsa-mir-487a hsa-mir-506
## 0.6875457 -0.6234259 0.6667901 0.6462570 1.0799827
## hsa-mir-507 hsa-mir-508 hsa-mir-509-1 hsa-mir-509-2 hsa-mir-509-3
## 1.3110639 1.0634858 1.1021953 1.1088305 1.0805202
## hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2 hsa-mir-513b hsa-mir-513c
## 1.3487461 1.0030912 1.1041617 0.9312010 0.9159748
## hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3 hsa-mir-514b hsa-mir-582
## 1.1088941 1.1209338 1.1254595 1.0572493 -0.6426409
## hsa-mir-656
## 0.6249114
##
## $`3bc`$bicluster1
## CTNNB1.R2Gn hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197 hsa-mir-127
## -0.9033705 1.3503645 1.1107468 0.9529190 0.8771463
## hsa-mir-134 hsa-mir-136 hsa-mir-154 hsa-mir-206 hsa-mir-299
## 0.8552275 0.8799115 0.9404601 -0.9422025 0.8557165
## hsa-mir-323 hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370
## 0.9517043 1.0090382 1.0896878 0.9268612 0.9256967
## hsa-mir-376a-1 hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-380
## 0.8889023 0.9533043 0.8807044 0.9724277 1.0380931
## hsa-mir-382 hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485
## 0.9003822 0.8873264 1.2199026 1.0121041 1.1513445
## hsa-mir-487a hsa-mir-494 hsa-mir-496 hsa-mir-517a hsa-mir-541
## 1.2182208 1.0982661 0.9103087 -0.9189714 0.9954855
## hsa-mir-543 hsa-mir-654 hsa-mir-655 hsa-mir-656 hsa-mir-668
## 1.0942886 0.9080437 1.1825263 1.3173936 1.1096351
## hsa-mir-889
## 0.8914403
##
##
## $`5bc`
## $`5bc`$bicluster2
## G6PD.RPPA FASN.RPPA TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## -1.223677 1.217596 -1.271622 1.570247 1.294725
## hsa-mir-1197 hsa-mir-127 hsa-mir-134 hsa-mir-154 hsa-mir-323
## 1.337937 1.173178 1.199352 1.210786 1.245608
## hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370 hsa-mir-376a-1
## 1.253850 1.433422 1.445291 1.236783 1.228026
## hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-380 hsa-mir-382
## 1.388361 1.185418 1.297923 1.449953 1.180177
## hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485 hsa-mir-487a
## 1.179492 1.389500 1.221530 1.337356 1.538557
## hsa-mir-494 hsa-mir-496 hsa-mir-541 hsa-mir-543 hsa-mir-654
## 1.370792 1.184541 1.397750 1.264016 1.197898
## hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668 hsa-mir-770
## 1.446290 1.774240 1.209625 1.367780 1.329506
## hsa-mir-889
## 1.170309
##
## $`5bc`$bicluster5
## RBM15.RPPA GATA3.RPPA FASN.RPPA VHL.RPPA FN1.R2Gn
## 0.7184612 0.6924899 0.7530785 -0.7024914 0.7782749
## CDH2.R2Gn GATA3.R2Gn CTNNB1.R2Gn CCND1.R2Gn hsa-mir-124-3
## 0.6767999 0.7291869 0.9789055 0.9398745 0.7354031
## hsa-mir-1258 hsa-mir-135b hsa-mir-139 hsa-mir-206 hsa-mir-2114
## -0.8778078 0.7789183 0.6835076 0.7065935 -0.9474872
## hsa-mir-3166 hsa-mir-3199-1 hsa-mir-3655 hsa-mir-3923 hsa-mir-3926-2
## 0.8217578 -0.8002071 -0.7022664 0.7653353 -0.8642790
## hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1 hsa-mir-509-2
## -1.2810821 -1.5268068 -1.2511387 -1.2461806 -1.2536204
## hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2 hsa-mir-513b
## -1.2361909 -1.6619289 -1.2442761 -1.3369888 -1.1415689
## hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3 hsa-mir-514b
## -1.1019043 -1.2999527 -1.3123096 -1.3144639 -1.2016029
## hsa-mir-605
## -0.7440529
##
## $`5bc`$bicluster1
## FASN.RPPA hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197 hsa-mir-323
## 1.117653 1.290131 1.071205 1.123461 1.077405
## hsa-mir-329-1 hsa-mir-329-2 hsa-mir-376a-1 hsa-mir-376a-2 hsa-mir-377
## 1.241555 1.415258 1.148375 1.098217 1.078513
## hsa-mir-380 hsa-mir-431 hsa-mir-432 hsa-mir-433 hsa-mir-466
## 1.257586 1.085488 1.091955 1.138532 -1.158672
## hsa-mir-487a hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1
## 1.210012 -1.203164 -1.357510 -1.171702 -1.095243
## hsa-mir-509-2 hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2
## -1.100937 -1.100505 -1.580255 -1.157794 -1.239173
## hsa-mir-513b hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3
## -1.094598 -1.108947 -1.164477 -1.173792 -1.171018
## hsa-mir-541 hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668
## 1.245527 1.142226 1.481162 1.187346 1.193894
## hsa-mir-770
## 1.237206
##
## $`5bc`$bicluster4
## G6PD.RPPA GATA3.RPPA IGFBP2.R2Gn FN1.R2Gn CCND1.R2Gn
## -0.8874401 -0.7115765 -0.7458151 -0.9565017 -0.8364112
## hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1269 hsa-mir-135b hsa-mir-206
## 0.9376338 0.7793299 -0.8862766 -0.6839028 -0.7246469
## hsa-mir-2114 hsa-mir-3166 hsa-mir-329-1 hsa-mir-3655 hsa-mir-377
## 0.7511895 -0.6856088 0.6745780 0.6822197 0.7118407
## hsa-mir-3923 hsa-mir-411 hsa-mir-429 hsa-mir-485 hsa-mir-487a
## -0.9393513 0.8631381 -0.6732284 0.8206766 0.8626403
## hsa-mir-494 hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1
## 0.7885223 0.7366205 0.8805492 0.6910378 0.7414954
## hsa-mir-509-2 hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-2 hsa-mir-514-1
## 0.7465243 0.7250601 1.0051334 0.7350518 0.7706746
## hsa-mir-514-2 hsa-mir-514-3 hsa-mir-514b hsa-mir-543 hsa-mir-655
## 0.7793074 0.7834490 0.7402679 0.7556145 0.8555369
## hsa-mir-656
## 0.8747549
##
## $`5bc`$bicluster3
## CTNNB1.R2Gn TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197
## -0.7258220 -0.9917658 0.9119355 0.8179147 0.7677908
## hsa-mir-206 hsa-mir-323 hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2
## -0.7216070 0.7241902 0.7383052 0.9301956 0.8555830
## hsa-mir-370 hsa-mir-376a-1 hsa-mir-376c hsa-mir-377 hsa-mir-380
## 0.7268798 0.7067193 0.6981417 0.7398770 0.7912598
## hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485 hsa-mir-487a
## 0.6927454 0.8515268 0.7315438 0.7494611 0.8980823
## hsa-mir-494 hsa-mir-516a-1 hsa-mir-516a-2 hsa-mir-516b-1 hsa-mir-517a
## 0.7818349 -1.0238960 -0.8652304 -0.8930039 -1.1226980
## hsa-mir-518b hsa-mir-519a-2 hsa-mir-520a hsa-mir-541 hsa-mir-543
## -0.9249284 -0.7535023 -0.7649585 0.8239600 0.7132918
## hsa-mir-654 hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668
## 0.7079798 0.8520211 1.0533879 0.6944180 0.8401613
## hsa-mir-770
## 0.7400861
##
##
## $`10bc`
## $`10bc`$bicluster9
## G6PD.RPPA FASN.RPPA TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## -1.462745 1.408663 -1.528343 1.630926 1.387648
## hsa-mir-1197 hsa-mir-127 hsa-mir-134 hsa-mir-136 hsa-mir-154
## 1.293736 1.266737 1.301764 1.287702 1.306299
## hsa-mir-323 hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370
## 1.312769 1.320481 1.522231 1.652729 1.340504
## hsa-mir-376a-1 hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-380
## 1.279101 1.392779 1.253179 1.412011 1.519219
## hsa-mir-382 hsa-mir-409 hsa-mir-411 hsa-mir-485 hsa-mir-487a
## 1.253564 1.259344 1.490102 1.379905 1.629246
## hsa-mir-494 hsa-mir-496 hsa-mir-541 hsa-mir-543 hsa-mir-654
## 1.419933 1.258245 1.372309 1.283927 1.297765
## hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668 hsa-mir-770
## 1.588696 1.894492 1.422869 1.335580 1.445396
## hsa-mir-876
## -1.251928
##
## $`10bc`$bicluster10
## FASN.RPPA TTF1.RPPA VHL.RPPA IGFBP2.R2Gn FASN.R2Gn
## -1.5274105 0.9069167 0.8539464 -0.8755194 -0.8902463
## CTNNB1.R2Gn PIK3R1.R2Gn hsa-mir-1193 hsa-mir-1258 hsa-mir-2114
## -0.8664015 0.8603335 -0.8257255 1.1115348 0.9960010
## hsa-mir-329-2 hsa-mir-380 hsa-mir-3909 hsa-mir-3922 hsa-mir-3926-2
## -1.1514295 -0.8568947 0.8736193 0.9005470 0.9053655
## hsa-mir-466 hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1
## 1.2096588 1.4877862 1.6584772 1.4428013 1.3927785
## hsa-mir-509-2 hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2
## 1.3999859 1.3987535 1.9970228 1.4671548 1.5612417
## hsa-mir-513b hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3
## 1.3697259 1.3370295 1.4764641 1.4873631 1.4849702
## hsa-mir-514b hsa-mir-605 hsa-mir-656 hsa-mir-665 hsa-mir-770
## 1.2816265 1.1618128 -1.0122797 -0.9011850 -0.9453659
## hsa-mir-876
## 0.8334968
##
## $`10bc`$bicluster7
## GATA3.RPPA FN1.R2Gn GATA3.R2Gn CTNNB1.R2Gn CCND1.R2Gn
## 0.8045924 1.5105720 0.8053707 0.7888432 1.0074275
## hsa-mir-1185-1 hsa-mir-135b hsa-mir-206 hsa-mir-2114 hsa-mir-296
## -0.8852070 0.9636991 0.8609145 -1.0739371 -0.8379147
## hsa-mir-3166 hsa-mir-3199-1 hsa-mir-320c-2 hsa-mir-3655 hsa-mir-3923
## 0.8709674 -0.8448901 -0.7740326 -0.8200618 1.2458162
## hsa-mir-3926-2 hsa-mir-411 hsa-mir-429 hsa-mir-485 hsa-mir-487a
## -0.7670181 -0.8065099 0.8136113 -0.7966192 -0.7572892
## hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1 hsa-mir-509-2
## -1.1966336 -1.5059972 -1.1635007 -1.1993246 -1.2090071
## hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2 hsa-mir-513b
## -1.1840188 -1.5948701 -1.1167460 -1.2067379 -1.0652999
## hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3 hsa-mir-514b
## -1.0159501 -1.2219215 -1.2360464 -1.2408427 -1.1833782
## hsa-mir-656
## -0.7860848
##
## $`10bc`$bicluster2
## G6PD.RPPA hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197 hsa-mir-127
## -1.032402 1.572284 1.274336 1.277146 1.069279
## hsa-mir-134 hsa-mir-136 hsa-mir-154 hsa-mir-299 hsa-mir-323
## 1.081196 1.050773 1.128018 1.039129 1.160717
## hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370 hsa-mir-376a-1
## 1.194810 1.316845 1.147179 1.128664 1.125214
## hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-379 hsa-mir-380
## 1.278186 1.088131 1.201200 1.025437 1.307862
## hsa-mir-382 hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485
## 1.105750 1.081776 1.351776 1.182958 1.336577
## hsa-mir-487a hsa-mir-494 hsa-mir-496 hsa-mir-541 hsa-mir-543
## 1.462340 1.325635 1.103873 1.310411 1.277806
## hsa-mir-654 hsa-mir-655 hsa-mir-656 hsa-mir-668 hsa-mir-770
## 1.095603 1.340141 1.681121 1.375431 1.131574
## hsa-mir-889
## 1.078448
##
## $`10bc`$bicluster1
## FN1.R2Gn hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197 hsa-mir-127
## -0.9547080 1.2875673 1.0640023 0.9647186 0.9416451
## hsa-mir-134 hsa-mir-136 hsa-mir-154 hsa-mir-299 hsa-mir-323
## 0.9477569 0.9450738 0.9481687 0.8898955 0.9558071
## hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370 hsa-mir-376a-1
## 1.0119887 1.0574270 1.0611295 0.9593036 0.9414308
## hsa-mir-376a-2 hsa-mir-376c hsa-mir-377 hsa-mir-379 hsa-mir-380
## 1.0470675 0.8943005 0.9395190 0.8850704 1.1203452
## hsa-mir-382 hsa-mir-409 hsa-mir-411 hsa-mir-433 hsa-mir-485
## 0.8992530 0.9242129 1.1144084 1.0782266 1.0886604
## hsa-mir-487a hsa-mir-494 hsa-mir-496 hsa-mir-541 hsa-mir-543
## 1.2093248 1.0174403 0.9098792 1.0520097 1.0151944
## hsa-mir-654 hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668
## 0.9399797 1.1057531 1.3345000 0.9436418 1.0677259
## hsa-mir-770
## 0.9978195
##
## $`10bc`$bicluster3
## FASN.RPPA TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1197
## 0.5760663 -0.7815945 0.6713936 0.6070342 0.6275874
## hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-376a-1 hsa-mir-380
## 0.5725844 0.7096430 0.7284656 0.5902027 0.6004218
## hsa-mir-433 hsa-mir-487a hsa-mir-506 hsa-mir-507 hsa-mir-508
## 0.5975042 0.6349316 -0.6827509 -0.7432906 -0.7058996
## hsa-mir-509-1 hsa-mir-509-2 hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1
## -0.6336533 -0.6342927 -0.6313652 -0.9944091 -0.7219759
## hsa-mir-513a-2 hsa-mir-513b hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2
## -0.7453797 -0.6549005 -0.6759318 -0.6560391 -0.6623585
## hsa-mir-514-3 hsa-mir-514b hsa-mir-516a-1 hsa-mir-516a-2 hsa-mir-516b-1
## -0.6561356 -0.6772861 -0.5805846 -0.5930698 -0.7750374
## hsa-mir-517a hsa-mir-518b hsa-mir-541 hsa-mir-656 hsa-mir-668
## -0.8073668 -0.8075451 0.6592196 0.8191651 0.6652767
## hsa-mir-770
## 0.6483303
##
## $`10bc`$bicluster8
## G6PD.RPPA ERBB3.R2Gn TGM2.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## -0.8578145 1.0985669 -0.7422173 1.0497708 0.8854318
## hsa-mir-1197 hsa-mir-136 hsa-mir-154 hsa-mir-323 hsa-mir-323b
## 0.7948017 0.7426809 0.7654090 0.7785561 0.8043037
## hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370 hsa-mir-376a-1 hsa-mir-376a-2
## 0.8900127 0.8349306 0.7575411 0.7445226 0.7800835
## hsa-mir-377 hsa-mir-380 hsa-mir-382 hsa-mir-409 hsa-mir-411
## 0.8123670 0.8673392 0.7274808 0.7332409 0.8832058
## hsa-mir-433 hsa-mir-485 hsa-mir-487a hsa-mir-487b hsa-mir-494
## 0.8246066 0.8393091 0.9210298 0.7299098 0.8012510
## hsa-mir-496 hsa-mir-517a hsa-mir-541 hsa-mir-543 hsa-mir-654
## 0.8134274 -0.9384336 0.8027538 0.8393921 0.7468551
## hsa-mir-655 hsa-mir-656 hsa-mir-665 hsa-mir-668 hsa-mir-770
## 0.8661148 1.1191052 0.7904591 0.8699738 0.7341120
## hsa-mir-889
## 0.7577327
##
## $`10bc`$bicluster6
## G6PD.RPPA RBM15.RPPA FASN.RPPA VHL.RPPA GAPDH.RPPA
## -0.4822755 0.5284256 0.9751094 -0.4726870 0.5564764
## MSH6.RPPA CDH2.R2Gn EEF2.R2Gn SQSTM1.R2Gn hsa-mir-1193
## 0.6367145 0.4771812 0.5311071 -0.4876945 0.5428938
## hsa-mir-124-3 hsa-mir-1258 hsa-mir-1270-1 hsa-mir-3926-2 hsa-mir-3934
## 0.4920527 -0.6231183 -0.4797317 -0.4938113 -0.7307437
## hsa-mir-466 hsa-mir-506 hsa-mir-507 hsa-mir-508 hsa-mir-509-1
## -0.7125538 -0.5317464 -0.4940167 -0.4834298 -0.4634957
## hsa-mir-509-2 hsa-mir-509-3 hsa-mir-510 hsa-mir-513a-1 hsa-mir-513a-2
## -0.4639393 -0.4581791 -0.7708856 -0.5439687 -0.5910066
## hsa-mir-513b hsa-mir-513c hsa-mir-514-1 hsa-mir-514-2 hsa-mir-514-3
## -0.5158769 -0.4635426 -0.5332727 -0.5358638 -0.5331768
## hsa-mir-514b hsa-mir-548v hsa-mir-552 hsa-mir-592 hsa-mir-605
## -0.4597463 -0.5293097 -0.5151529 -0.4793774 -0.8211215
## hsa-mir-653
## -0.5537353
##
## $`10bc`$bicluster5
## CDH2.R2Gn CTNNB1.R2Gn CCND1.R2Gn hsa-mir-1185-1 hsa-mir-1185-2
## 0.4472989 0.5932909 0.3867946 -0.5737252 -0.4375696
## hsa-mir-1197 hsa-mir-1269 hsa-mir-127 hsa-mir-136 hsa-mir-154
## -0.3964926 0.4330842 -0.4016385 -0.3868483 -0.3950753
## hsa-mir-323 hsa-mir-323b hsa-mir-329-1 hsa-mir-329-2 hsa-mir-370
## -0.4171626 -0.4575472 -0.4831626 -0.4377473 -0.3825449
## hsa-mir-376a-1 hsa-mir-376a-2 hsa-mir-380 hsa-mir-381 hsa-mir-410
## -0.3840932 -0.4109170 -0.4545492 -0.3911366 -0.4196650
## hsa-mir-411 hsa-mir-432 hsa-mir-433 hsa-mir-485 hsa-mir-487a
## -0.5647757 -0.3986083 -0.5586840 -0.5123031 -0.4939001
## hsa-mir-488 hsa-mir-494 hsa-mir-495 hsa-mir-496 hsa-mir-541
## 0.4141016 -0.4413336 -0.3912357 -0.3825438 -0.4612918
## hsa-mir-543 hsa-mir-552 hsa-mir-654 hsa-mir-655 hsa-mir-668
## -0.4811812 -0.4072452 -0.3864806 -0.5451296 -0.4855031
## hsa-mir-889
## -0.3910674
##
## $`10bc`$bicluster4
## G6PD.RPPA NF2.RPPA G6PD.R2Gn TFRC.R2Gn PXN.R2Gn
## -0.8633667 0.3005225 -0.4510887 -0.3082843 -0.3541556
## hsa-mir-105-1 hsa-mir-105-2 hsa-mir-1185-1 hsa-mir-1185-2 hsa-mir-1249
## -0.3371216 -0.3576975 0.4217317 0.3526467 0.4325660
## hsa-mir-1269 hsa-mir-134 hsa-mir-136 hsa-mir-216b hsa-mir-217
## -0.4865206 0.3083781 0.3068420 -0.5211621 -0.3442703
## hsa-mir-329-1 hsa-mir-329-2 hsa-mir-377 hsa-mir-380 hsa-mir-433
## 0.3504894 0.3563077 0.3687179 0.3149718 0.3572780
## hsa-mir-483 hsa-mir-485 hsa-mir-487a hsa-mir-494 hsa-mir-507
## -0.3707636 0.3006943 0.3939835 0.3356774 -0.3081056
## hsa-mir-543 hsa-mir-552 hsa-mir-577 hsa-mir-598 hsa-mir-655
## 0.2896204 -0.2926853 -0.3540091 -0.2935015 0.3371770
## hsa-mir-656 hsa-mir-665 hsa-mir-668 hsa-mir-767 hsa-mir-770
## 0.3617603 0.3529829 0.3320721 -0.3312544 0.3103354
## hsa-mir-876
## -0.29518311. Convert microRNA to genes
Also remove the ending “.R2Gn” and “.RPPA” from gene names.
split.by.omic = function(variable.list) {
out.mRSG = variable.list[startsWith(variable.list, "hsa")]
out.R2Gn = variable.list[endsWith(variable.list, ".R2Gn")]
out.RPPA = variable.list[endsWith(variable.list, ".RPPA")]
out = list("miRNASeqGene" = out.mRSG,
"RNASeq2GeneNorm" = out.R2Gn,
"RPPAArray" = out.RPPA)
out
}multiomics.to.GENES = function(sel.features, full.search = F, table = "validated", drop.miRNA = F) {
multiomics.list = split.by.omic(sel.features)
# Convert miRNASeqGene to target GENE names
# Skipped and returns an empty list instead of the list of select features,
# or if microRNA features are explicitly dropped (drop.miRNA = T).
# (Usually done when the features has only a few miRNA and unable to target any genes)
if (length(multiomics.list[[1]]) > 0 & !drop.miRNA) {
if (!full.search) { # Search only among the 198 genes in ACC, recommended
targets= get_multimir(mirna = multiomics.list[[1]],
target = gene.names,
table = table,
summary = T)
mRSG.target.genes = unique(targets@data$target_symbol)
} else { # Search the full dataset, not recommended.
# Use only if ACC gene search returns nothing or fails.
# Genes not in the ACC genes need to be manually removed.
targets= get_multimir(mirna = multiomics.list[[1]],
table = table,
summary = T)
mRSG.target.genes = unique(targets@data$target_symbol)
}
} else {
mRSG.target.genes = list()
}
#Remove suffix for Pathway Analysis Compatibility
R2Gn.genes = str_remove(multiomics.list[[2]], ".R2Gn")
RPPA.genes = str_remove(multiomics.list[[3]], ".RPPA")
#Join all cleaned-up genes are remove duplicates.
out1 = c(mRSG.target.genes, R2Gn.genes, RPPA.genes)
out = as.character(unique(out1))
out
}geneNames <- list("Factor1of1"= multiomics.to.GENES(names(sel.features$`1bc`$bicluster1)),
"Factor1of2"= multiomics.to.GENES(names(sel.features$`2bc`$bicluster1)),
"Factor2of2"= multiomics.to.GENES(names(sel.features$`2bc`$bicluster2)),
"Factor1of3"= multiomics.to.GENES(names(sel.features$`3bc`$bicluster1)),
"Factor2of3"= multiomics.to.GENES(names(sel.features$`3bc`$bicluster2)),
"Factor3of3"= multiomics.to.GENES(names(sel.features$`3bc`$bicluster3)),
"Factor1of5"= multiomics.to.GENES(names(sel.features$`5bc`$bicluster1)),
"Factor2of5"= multiomics.to.GENES(names(sel.features$`5bc`$bicluster2)),
"Factor3of5"= multiomics.to.GENES(names(sel.features$`5bc`$bicluster3)),
"Factor4of5"= multiomics.to.GENES(names(sel.features$`5bc`$bicluster4)),
"Factor5of5"= multiomics.to.GENES(names(sel.features$`5bc`$bicluster5)),
"Factor1of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster1)),
"Factor2of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster2)),
"Factor3of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster3)),
"Factor4of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster4)),
"Factor5of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster5)),
"Factor6of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster6)),
"Factor7of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster7)),
"Factor8of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster8)),
"Factor9of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster9)),
"Factor10of10"= multiomics.to.GENES(names(sel.features$`10bc`$bicluster10))
)## Searching mirecords ...
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## Searching tarbase ...geneNames## $Factor1of1
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS" "PTK2" "ETS1"
## [17] "STAT5A" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2" "TGM2" "G6PD"
##
## $Factor1of2
## [1] "ESR1" "MET" "G6PD" "BCL2" "KRAS" "CCND1" "NOTCH3" "AKT1"
## [9] "IGF1R" "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "PTEN" "NRAS"
## [17] "PTK2" "ATM" "YWHAZ" "FOXO3" "CHEK1" "FN1" "NCOA3" "GAB2"
## [25] "ITGA2" "CTNNB1"
##
## $Factor2of2
## [1] "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "CCND1" "PIK3R1" "CHEK1" "IGF1R" "SRSF1"
## [17] "TUBA1B" "STAT5A" "NCOA3" "GAB2" "YAP1" "MAPK1" "ANLN" "TGM2"
## [25] "G6PD" "FASN"
##
## $Factor1of3
## [1] "ESR1" "MET" "G6PD" "BCL2" "KRAS" "CCND1" "NOTCH3" "AKT1"
## [9] "IGF1R" "HSPA1A" "VHL" "MTOR" "MAPK8" "PTEN" "NRAS" "PTK2"
## [17] "ETS1" "ATM" "CDKN1A" "STAT5A" "FOXO3" "CHEK1" "FN1" "ITGA2"
## [25] "CTNNB1"
##
## $Factor2of3
## [1] "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "CCND1" "PIK3R1" "CHEK1" "IGF1R" "SRSF1"
## [17] "TUBA1B" "STAT5A" "NCOA3" "GAB2" "YAP1" "MAPK1" "ANLN" "TGM2"
## [25] "SQSTM1" "G6PD" "FASN" "TTF1"
##
## $Factor3of3
## [1] "ESR1" "MET" "BAP1" "ERRFI1" "G6PD" "BCL2" "KRAS"
## [8] "CCND1" "NOTCH3" "AKT1" "IGF1R" "PTEN" "CDKN1B" "IRS1"
## [15] "MYC" "JUN" "BCL2L11" "EZH2" "SHC1" "XIAP" "ETS1"
## [22] "MAPK8" "ARID1A" "BID" "YWHAZ" "FOXO3" "CHEK1" "FN1"
## [29] "NCOA3" "AXL" "PTK2" "CDKN1A" "EGFR" "CAV1" "CASP3"
## [36] "ANXA1" "TFF1" "STAT3" "ASNS" "FOXM1" "IGFBP2" "ITGA2"
## [43] "RET" "SQSTM1" "CCNE2" "GAB2" "NDRG1" "INPP4B" "LCN2"
## [50] "RAD50" "CTNNB1" "GATA3"
##
## $Factor1of5
## [1] "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "CCND1" "PIK3R1" "CHEK1" "IGF1R" "SRSF1"
## [17] "TUBA1B" "STAT5A" "NCOA3" "GAB2" "YAP1" "MAPK1" "ANLN" "FASN"
##
## $Factor2of5
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS" "PTK2" "ETS1"
## [17] "STAT5A" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2" "TGM2" "G6PD"
## [25] "FASN"
##
## $Factor3of5
## [1] "ESR1" "MET" "G6PD" "BCL2" "KRAS" "CCND1" "NOTCH3" "AKT1"
## [9] "IGF1R" "MYH9" "CDKN1A" "FOXO3" "ATM" "CASP8" "MACC1" "PTEN"
## [17] "NRAS" "PTK2" "ETS1" "STAT5A" "CHEK1" "FN1" "YAP1" "MAPK1"
## [25] "ANLN" "ITGA2" "CTNNB1" "TGM2"
##
## $Factor4of5
## [1] "ESR1" "MET" "BAP1" "ERRFI1" "G6PD" "BCL2" "KRAS"
## [8] "CCND1" "NOTCH3" "AKT1" "IGF1R" "PTEN" "CDKN1B" "IRS1"
## [15] "MYC" "JUN" "BCL2L11" "EZH2" "SHC1" "XIAP" "ETS1"
## [22] "MAPK8" "ARID1A" "BID" "NRAS" "PTK2" "ATM" "YWHAZ"
## [29] "FOXO3" "CHEK1" "FN1" "NCOA3" "AXL" "CDKN1A" "EGFR"
## [36] "CAV1" "CASP3" "ANXA1" "TFF1" "STAT3" "ASNS" "FOXM1"
## [43] "IGFBP2" "ITGA2" "RET" "SQSTM1" "CCNE2" "GAB2" "NDRG1"
## [50] "INPP4B" "LCN2" "RAD50" "GATA3"
##
## $Factor5of5
## [1] "ESR1" "MET" "G6PD" "BCL2" "KRAS" "CCND1" "NOTCH3" "AKT1"
## [9] "IGF1R" "RB1" "XIAP" "ETS1" "MAPK8" "ARID1A" "BID" "YWHAZ"
## [17] "FOXO3" "CHEK1" "FN1" "NCOA3" "GAB2" "CDH2" "GATA3" "CTNNB1"
## [25] "RBM15" "FASN" "VHL"
##
## $Factor1of10
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS" "PTK2" "ETS1"
## [17] "STAT5A" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2" "FN1"
##
## $Factor2of10
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "PTEN" "KRAS" "NRAS"
## [9] "PTK2" "ETS1" "ATM" "CDKN1A" "STAT5A" "ITGA2" "G6PD"
##
## $Factor3of10
## [1] "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "CDKN1A" "STAT5A" "NCOA3"
## [9] "GAB2" "TGM2" "FASN"
##
## $Factor4of10
## [1] "ETS1" "XIAP" "MAPK8" "ARID1A" "BID" "MYH9" "CDKN1A"
## [8] "FOXO3" "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS"
## [15] "PTK2" "PARP1" "IGF1R" "CCNE2" "RAB25" "EZH2" "RAB11B"
## [22] "NCOA3" "GAB2" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2"
## [29] "BCL2" "MYC" "CASP3" "BCL2L11" "MSH6" "PIK3CA" "SRSF1"
## [36] "MSH2" "CDH1" "CTNNB1" "IGFBP2" "PRKAA1" "YWHAB" "G6PD"
## [43] "TFRC" "PXN" "NF2"
##
## $Factor5of10
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "PTEN" "KRAS" "NRAS"
## [9] "PTK2" "ETS1" "ATM" "CDKN1A" "STAT5A" "ITGA2" "CDH2" "CTNNB1"
## [17] "CCND1"
##
## $Factor6of10
## [1] "RB1" "XIAP" "ETS1" "MAPK8" "ARID1A" "BID" "CCND1"
## [8] "PIK3R1" "CHEK1" "IGF1R" "SRSF1" "TUBA1B" "NRAS" "MYH9"
## [15] "CDKN1B" "BCL2L11" "ERBB3" "FOXO3" "ACACA" "NCOA3" "GAB2"
## [22] "MYC" "EIF4G1" "CDH2" "EEF2" "SQSTM1" "G6PD" "RBM15"
## [29] "FASN" "VHL" "GAPDH" "MSH6"
##
## $Factor7of10
## [1] "ESR1" "MET" "BAP1" "ERRFI1" "G6PD" "BCL2" "KRAS"
## [8] "CCND1" "NOTCH3" "AKT1" "IGF1R" "PTEN" "CDKN1B" "IRS1"
## [15] "MYC" "JUN" "BCL2L11" "EZH2" "SHC1" "XIAP" "ETS1"
## [22] "MAPK8" "ARID1A" "BID" "YWHAZ" "FOXO3" "CHEK1" "FN1"
## [29] "NCOA3" "AXL" "PTK2" "CDKN1A" "EGFR" "CAV1" "CASP3"
## [36] "ANXA1" "TFF1" "STAT3" "ASNS" "FOXM1" "IGFBP2" "ITGA2"
## [43] "RET" "SQSTM1" "CCNE2" "GAB2" "NDRG1" "INPP4B" "LCN2"
## [50] "RAD50" "GATA3" "CTNNB1"
##
## $Factor8of10
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS" "PTK2" "ETS1"
## [17] "STAT5A" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2" "ERBB3" "TGM2"
## [25] "G6PD"
##
## $Factor9of10
## [1] "HSPA1A" "AKT1" "VHL" "MTOR" "MAPK8" "MYH9" "CDKN1A" "FOXO3"
## [9] "ATM" "CASP8" "MACC1" "PTEN" "KRAS" "NRAS" "PTK2" "ETS1"
## [17] "STAT5A" "CCND1" "YAP1" "MAPK1" "ANLN" "ITGA2" "TGM2" "G6PD"
## [25] "FASN"
##
## $Factor10of10
## [1] "RB1" "XIAP" "ETS1" "MAPK8" "ARID1A" "BID" "MYH9" "CDKN1A"
## [9] "FOXO3" "ATM" "CASP8" "MACC1" "CCND1" "PIK3R1" "CHEK1" "IGF1R"
## [17] "SRSF1" "TUBA1B" "NRAS" "NCOA3" "GAB2" "YAP1" "MAPK1" "ANLN"
## [25] "IGFBP2" "FASN" "CTNNB1" "TTF1" "VHL"saveRDS(geneNames, file = "data/sel_features/gene_converted/genes_fabia_top_5_percent.rds")2. Pathway Analysis
A. GO Classification
ggo_MF <- list()#functional profile of a geneset for Molecular Function
ggo_BP <- list()#functional profile of a geneset for Biological Process
ggo_CC <- list()#functional profile of a geneset for Cellular Component
for(z in 1:length(geneNames)){
print(z)
input <- geneNames[[z]]
ggo_MF[[z]] <- groupGO(gene=input,
OrgDb = org.Hs.eg.db,
ont="MF",
keyType="SYMBOL",
readable=TRUE)
ggo_BP[[z]] <- groupGO(gene=input,
OrgDb = org.Hs.eg.db,
ont="BP",
keyType="SYMBOL",
readable=TRUE)
ggo_CC[[z]] <- groupGO(gene=input,
OrgDb = org.Hs.eg.db,
ont="CC",
keyType="SYMBOL",
readable=TRUE)
}## [1] 1
## [1] 2
## [1] 3
## [1] 4
## [1] 5
## [1] 6
## [1] 7
## [1] 8
## [1] 9
## [1] 10
## [1] 11
## [1] 12
## [1] 13
## [1] 14
## [1] 15
## [1] 16
## [1] 17
## [1] 18
## [1] 19
## [1] 20
## [1] 21for(z in 1:length(geneNames)) {
print(head(ggo_MF[[z]]))
print(head(ggo_BP[[z]]))
print(head(ggo_CC[[z]]))
}## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/24
## GO:0003824 GO:0003824 catalytic activity 16 16/24
## GO:0005198 GO:0005198 structural molecule activity 0 0/24
## GO:0005215 GO:0005215 transporter activity 0 0/24
## GO:0005488 GO:0005488 binding 24 24/24
## GO:0009055 GO:0009055 electron transfer activity 0 0/24
## geneID
## GO:0003774 MYH9
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/CCND1/MAPK1/TGM2/G6PD
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/24
## GO:0002376 GO:0002376 immune system process 14 14/24
## GO:0008152 GO:0008152 metabolic process 22 22/24
## GO:0009987 GO:0009987 cellular process 24 24/24
## GO:0016032 GO:0016032 viral process 3 3/24
## GO:0022414 GO:0022414 reproductive process 8 8/24
## geneID
## GO:0000003 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/MAPK1/ITGA2/G6PD
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ITGA2/TGM2/G6PD
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 14 14/24
## GO:0044423 GO:0044423 virion component 0 0/24
## GO:0110165 GO:0110165 cellular anatomical entity 24 24/24
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CCND1/YAP1/ITGA2/TGM2
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/26
## GO:0003824 GO:0003824 catalytic activity 14 14/26
## GO:0005198 GO:0005198 structural molecule activity 1 1/26
## GO:0005215 GO:0005215 transporter activity 2 2/26
## GO:0005488 GO:0005488 binding 26 26/26
## GO:0009055 GO:0009055 electron transfer activity 0 0/26
## geneID
## GO:0003774
## GO:0003824 MET/G6PD/KRAS/CCND1/AKT1/IGF1R/XIAP/MAPK8/PTEN/NRAS/PTK2/ATM/CHEK1/NCOA3
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/ETS1/XIAP/MAPK8/ARID1A/BID/PTEN/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/ITGA2/CTNNB1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 9 9/26
## GO:0002376 GO:0002376 immune system process 18 18/26
## GO:0008152 GO:0008152 metabolic process 24 24/26
## GO:0009987 GO:0009987 cellular process 26 26/26
## GO:0016032 GO:0016032 viral process 3 3/26
## GO:0022414 GO:0022414 reproductive process 9 9/26
## geneID
## GO:0000003 ESR1/BCL2/AKT1/IGF1R/PTEN/ATM/FOXO3/ITGA2/CTNNB1
## GO:0002376 ESR1/G6PD/BCL2/AKT1/IGF1R/ETS1/XIAP/MAPK8/ARID1A/BID/PTK2/ATM/YWHAZ/FOXO3/FN1/GAB2/ITGA2/CTNNB1
## GO:0008152 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/ETS1/XIAP/MAPK8/ARID1A/BID/PTEN/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/ITGA2/CTNNB1
## GO:0009987 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/ETS1/XIAP/MAPK8/ARID1A/BID/PTEN/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/ITGA2/CTNNB1
## GO:0016032 BCL2/AKT1/ITGA2
## GO:0022414 ESR1/BCL2/AKT1/IGF1R/PTEN/ATM/FOXO3/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 16 16/26
## GO:0044423 GO:0044423 virion component 0 0/26
## GO:0110165 GO:0110165 cellular anatomical entity 26 26/26
## geneID
## GO:0032991 ESR1/MET/BCL2/CCND1/NOTCH3/AKT1/IGF1R/ETS1/ARID1A/ATM/FOXO3/CHEK1/FN1/NCOA3/ITGA2/CTNNB1
## GO:0044423
## GO:0110165 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/ETS1/XIAP/MAPK8/ARID1A/BID/PTEN/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/26
## GO:0003824 GO:0003824 catalytic activity 15 15/26
## GO:0005198 GO:0005198 structural molecule activity 1 1/26
## GO:0005215 GO:0005215 transporter activity 1 1/26
## GO:0005488 GO:0005488 binding 26 26/26
## GO:0009055 GO:0009055 electron transfer activity 0 0/26
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CDKN1A/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/TUBA1B/NCOA3/MAPK1/TGM2/G6PD/FASN
## GO:0005198 TUBA1B
## GO:0005215 IGF1R
## GO:0005488 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/G6PD/FASN
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 5 5/26
## GO:0002376 GO:0002376 immune system process 15 15/26
## GO:0008152 GO:0008152 metabolic process 23 23/26
## GO:0009987 GO:0009987 cellular process 26 26/26
## GO:0016032 GO:0016032 viral process 0 0/26
## GO:0022414 GO:0022414 reproductive process 5 5/26
## geneID
## GO:0000003 MYH9/FOXO3/ATM/CASP8/IGF1R
## GO:0002376 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/PIK3R1/IGF1R/GAB2/MAPK1/G6PD
## GO:0008152 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1/MAPK1/TGM2/G6PD/FASN
## GO:0009987 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/G6PD/FASN
## GO:0016032
## GO:0022414 MYH9/FOXO3/ATM/CASP8/IGF1R
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 16 16/26
## GO:0044423 GO:0044423 virion component 0 0/26
## GO:0110165 GO:0110165 cellular anatomical entity 26 26/26
## geneID
## GO:0032991 ETS1/ARID1A/MYH9/CDKN1A/FOXO3/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1/TGM2
## GO:0044423
## GO:0110165 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/G6PD/FASN
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/25
## GO:0003824 GO:0003824 catalytic activity 16 16/25
## GO:0005198 GO:0005198 structural molecule activity 1 1/25
## GO:0005215 GO:0005215 transporter activity 2 2/25
## GO:0005488 GO:0005488 binding 25 25/25
## GO:0009055 GO:0009055 electron transfer activity 0 0/25
## geneID
## GO:0003774
## GO:0003824 MET/G6PD/KRAS/CCND1/AKT1/IGF1R/HSPA1A/VHL/MTOR/MAPK8/PTEN/NRAS/PTK2/ATM/CDKN1A/CHEK1
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/HSPA1A/VHL/MTOR/MAPK8/PTEN/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/FOXO3/CHEK1/FN1/ITGA2/CTNNB1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 10 10/25
## GO:0002376 GO:0002376 immune system process 16 16/25
## GO:0008152 GO:0008152 metabolic process 24 24/25
## GO:0009987 GO:0009987 cellular process 25 25/25
## GO:0016032 GO:0016032 viral process 4 4/25
## GO:0022414 GO:0022414 reproductive process 10 10/25
## geneID
## GO:0000003 ESR1/BCL2/AKT1/IGF1R/MTOR/PTEN/ATM/FOXO3/ITGA2/CTNNB1
## GO:0002376 ESR1/G6PD/BCL2/AKT1/IGF1R/HSPA1A/MTOR/MAPK8/PTK2/ETS1/ATM/CDKN1A/FOXO3/FN1/ITGA2/CTNNB1
## GO:0008152 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/HSPA1A/VHL/MTOR/MAPK8/PTEN/PTK2/ETS1/ATM/CDKN1A/STAT5A/FOXO3/CHEK1/FN1/ITGA2/CTNNB1
## GO:0009987 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/HSPA1A/VHL/MTOR/MAPK8/PTEN/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/FOXO3/CHEK1/FN1/ITGA2/CTNNB1
## GO:0016032 BCL2/AKT1/HSPA1A/ITGA2
## GO:0022414 ESR1/BCL2/AKT1/IGF1R/MTOR/PTEN/ATM/FOXO3/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 18 18/25
## GO:0044423 GO:0044423 virion component 0 0/25
## GO:0110165 GO:0110165 cellular anatomical entity 25 25/25
## geneID
## GO:0032991 ESR1/MET/BCL2/CCND1/NOTCH3/AKT1/IGF1R/HSPA1A/MTOR/ETS1/ATM/CDKN1A/STAT5A/FOXO3/CHEK1/FN1/ITGA2/CTNNB1
## GO:0044423
## GO:0110165 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/HSPA1A/VHL/MTOR/MAPK8/PTEN/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/FOXO3/CHEK1/FN1/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/28
## GO:0003824 GO:0003824 catalytic activity 15 15/28
## GO:0005198 GO:0005198 structural molecule activity 1 1/28
## GO:0005215 GO:0005215 transporter activity 1 1/28
## GO:0005488 GO:0005488 binding 28 28/28
## GO:0009055 GO:0009055 electron transfer activity 0 0/28
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CDKN1A/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/TUBA1B/NCOA3/MAPK1/TGM2/G6PD/FASN
## GO:0005198 TUBA1B
## GO:0005215 IGF1R
## GO:0005488 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/SQSTM1/G6PD/FASN/TTF1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 5 5/28
## GO:0002376 GO:0002376 immune system process 16 16/28
## GO:0008152 GO:0008152 metabolic process 25 25/28
## GO:0009987 GO:0009987 cellular process 28 28/28
## GO:0016032 GO:0016032 viral process 0 0/28
## GO:0022414 GO:0022414 reproductive process 5 5/28
## geneID
## GO:0000003 MYH9/FOXO3/ATM/CASP8/IGF1R
## GO:0002376 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/PIK3R1/IGF1R/GAB2/MAPK1/SQSTM1/G6PD
## GO:0008152 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1/MAPK1/TGM2/SQSTM1/G6PD/FASN/TTF1
## GO:0009987 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/SQSTM1/G6PD/FASN/TTF1
## GO:0016032
## GO:0022414 MYH9/FOXO3/ATM/CASP8/IGF1R
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 16 16/28
## GO:0044423 GO:0044423 virion component 0 0/28
## GO:0110165 GO:0110165 cellular anatomical entity 28 28/28
## geneID
## GO:0032991 ETS1/ARID1A/MYH9/CDKN1A/FOXO3/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1/TGM2
## GO:0044423
## GO:0110165 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/TGM2/SQSTM1/G6PD/FASN/TTF1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/52
## GO:0003824 GO:0003824 catalytic activity 22 22/52
## GO:0005198 GO:0005198 structural molecule activity 1 1/52
## GO:0005215 GO:0005215 transporter activity 2 2/52
## GO:0005488 GO:0005488 binding 52 52/52
## GO:0009055 GO:0009055 electron transfer activity 0 0/52
## geneID
## GO:0003774
## GO:0003824 MET/BAP1/G6PD/KRAS/CCND1/AKT1/IGF1R/PTEN/EZH2/XIAP/MAPK8/CHEK1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CASP3/ASNS/RET/INPP4B/RAD50
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/CTNNB1/GATA3
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 19 19/52
## GO:0002376 GO:0002376 immune system process 33 33/52
## GO:0008152 GO:0008152 metabolic process 48 48/52
## GO:0009987 GO:0009987 cellular process 52 52/52
## GO:0016032 GO:0016032 viral process 7 7/52
## GO:0022414 GO:0022414 reproductive process 18 18/52
## geneID
## GO:0000003 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/FOXO3/AXL/EGFR/CASP3/STAT3/IGFBP2/ITGA2/CCNE2/RAD50/CTNNB1/GATA3
## GO:0002376 ESR1/BAP1/G6PD/BCL2/AKT1/IGF1R/MYC/BCL2L11/EZH2/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/FN1/AXL/PTK2/CDKN1A/CAV1/CASP3/ANXA1/STAT3/IGFBP2/ITGA2/RET/SQSTM1/GAB2/NDRG1/LCN2/CTNNB1/GATA3
## GO:0008152 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/ITGA2/RET/SQSTM1/CCNE2/INPP4B/LCN2/RAD50/CTNNB1/GATA3
## GO:0009987 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/CTNNB1/GATA3
## GO:0016032 BCL2/AKT1/JUN/AXL/EGFR/CAV1/ITGA2
## GO:0022414 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/FOXO3/AXL/EGFR/CASP3/IGFBP2/ITGA2/CCNE2/RAD50/CTNNB1/GATA3
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 34 34/52
## GO:0044423 GO:0044423 virion component 0 0/52
## GO:0110165 GO:0110165 cellular anatomical entity 52 52/52
## geneID
## GO:0032991 ESR1/MET/BAP1/BCL2/CCND1/NOTCH3/AKT1/IGF1R/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/ETS1/ARID1A/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/STAT3/FOXM1/ITGA2/RET/CCNE2/RAD50/CTNNB1/GATA3
## GO:0044423
## GO:0110165 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/CTNNB1/GATA3
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/24
## GO:0003824 GO:0003824 catalytic activity 13 13/24
## GO:0005198 GO:0005198 structural molecule activity 1 1/24
## GO:0005215 GO:0005215 transporter activity 1 1/24
## GO:0005488 GO:0005488 binding 24 24/24
## GO:0009055 GO:0009055 electron transfer activity 0 0/24
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CDKN1A/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/TUBA1B/NCOA3/MAPK1/FASN
## GO:0005198 TUBA1B
## GO:0005215 IGF1R
## GO:0005488 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/FASN
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 5 5/24
## GO:0002376 GO:0002376 immune system process 14 14/24
## GO:0008152 GO:0008152 metabolic process 21 21/24
## GO:0009987 GO:0009987 cellular process 24 24/24
## GO:0016032 GO:0016032 viral process 0 0/24
## GO:0022414 GO:0022414 reproductive process 5 5/24
## geneID
## GO:0000003 MYH9/FOXO3/ATM/CASP8/IGF1R
## GO:0002376 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/PIK3R1/IGF1R/GAB2/MAPK1
## GO:0008152 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1/MAPK1/FASN
## GO:0009987 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/FASN
## GO:0016032
## GO:0022414 MYH9/FOXO3/ATM/CASP8/IGF1R
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 15 15/24
## GO:0044423 GO:0044423 virion component 0 0/24
## GO:0110165 GO:0110165 cellular anatomical entity 24 24/24
## geneID
## GO:0032991 ETS1/ARID1A/MYH9/CDKN1A/FOXO3/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/STAT5A/NCOA3/YAP1
## GO:0044423
## GO:0110165 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/STAT5A/NCOA3/GAB2/YAP1/MAPK1/ANLN/FASN
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/25
## GO:0003824 GO:0003824 catalytic activity 17 17/25
## GO:0005198 GO:0005198 structural molecule activity 0 0/25
## GO:0005215 GO:0005215 transporter activity 0 0/25
## GO:0005488 GO:0005488 binding 25 25/25
## GO:0009055 GO:0009055 electron transfer activity 0 0/25
## geneID
## GO:0003774 MYH9
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/CCND1/MAPK1/TGM2/G6PD/FASN
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/25
## GO:0002376 GO:0002376 immune system process 14 14/25
## GO:0008152 GO:0008152 metabolic process 23 23/25
## GO:0009987 GO:0009987 cellular process 25 25/25
## GO:0016032 GO:0016032 viral process 3 3/25
## GO:0022414 GO:0022414 reproductive process 8 8/25
## geneID
## GO:0000003 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/MAPK1/ITGA2/G6PD
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ITGA2/TGM2/G6PD/FASN
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 14 14/25
## GO:0044423 GO:0044423 virion component 0 0/25
## GO:0110165 GO:0110165 cellular anatomical entity 25 25/25
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CCND1/YAP1/ITGA2/TGM2
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/28
## GO:0003824 GO:0003824 catalytic activity 15 15/28
## GO:0005198 GO:0005198 structural molecule activity 1 1/28
## GO:0005215 GO:0005215 transporter activity 2 2/28
## GO:0005488 GO:0005488 binding 28 28/28
## GO:0009055 GO:0009055 electron transfer activity 0 0/28
## geneID
## GO:0003774 MYH9
## GO:0003824 MET/G6PD/KRAS/CCND1/AKT1/IGF1R/CDKN1A/ATM/CASP8/PTEN/NRAS/PTK2/CHEK1/MAPK1/TGM2
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/NRAS/PTK2/ETS1/STAT5A/CHEK1/FN1/YAP1/MAPK1/ANLN/ITGA2/CTNNB1/TGM2
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 11 11/28
## GO:0002376 GO:0002376 immune system process 16 16/28
## GO:0008152 GO:0008152 metabolic process 26 26/28
## GO:0009987 GO:0009987 cellular process 28 28/28
## GO:0016032 GO:0016032 viral process 3 3/28
## GO:0022414 GO:0022414 reproductive process 11 11/28
## geneID
## GO:0000003 ESR1/BCL2/AKT1/IGF1R/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2/CTNNB1
## GO:0002376 ESR1/G6PD/BCL2/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/FN1/MAPK1/ITGA2/CTNNB1
## GO:0008152 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/PTK2/ETS1/STAT5A/CHEK1/FN1/YAP1/MAPK1/ITGA2/CTNNB1/TGM2
## GO:0009987 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/NRAS/PTK2/ETS1/STAT5A/CHEK1/FN1/YAP1/MAPK1/ANLN/ITGA2/CTNNB1/TGM2
## GO:0016032 BCL2/AKT1/ITGA2
## GO:0022414 ESR1/BCL2/AKT1/IGF1R/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 20 20/28
## GO:0044423 GO:0044423 virion component 0 0/28
## GO:0110165 GO:0110165 cellular anatomical entity 28 28/28
## geneID
## GO:0032991 ESR1/MET/BCL2/CCND1/NOTCH3/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CHEK1/FN1/YAP1/ITGA2/CTNNB1/TGM2
## GO:0044423
## GO:0110165 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/NRAS/PTK2/ETS1/STAT5A/CHEK1/FN1/YAP1/MAPK1/ANLN/ITGA2/CTNNB1/TGM2
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/53
## GO:0003824 GO:0003824 catalytic activity 24 24/53
## GO:0005198 GO:0005198 structural molecule activity 1 1/53
## GO:0005215 GO:0005215 transporter activity 2 2/53
## GO:0005488 GO:0005488 binding 53 53/53
## GO:0009055 GO:0009055 electron transfer activity 0 0/53
## geneID
## GO:0003774
## GO:0003824 MET/BAP1/G6PD/KRAS/CCND1/AKT1/IGF1R/PTEN/EZH2/XIAP/MAPK8/NRAS/PTK2/ATM/CHEK1/NCOA3/AXL/CDKN1A/EGFR/CASP3/ASNS/RET/INPP4B/RAD50
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 19 19/53
## GO:0002376 GO:0002376 immune system process 33 33/53
## GO:0008152 GO:0008152 metabolic process 48 48/53
## GO:0009987 GO:0009987 cellular process 53 53/53
## GO:0016032 GO:0016032 viral process 7 7/53
## GO:0022414 GO:0022414 reproductive process 18 18/53
## geneID
## GO:0000003 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/ATM/FOXO3/AXL/EGFR/CASP3/STAT3/IGFBP2/ITGA2/CCNE2/RAD50/GATA3
## GO:0002376 ESR1/BAP1/G6PD/BCL2/AKT1/IGF1R/MYC/BCL2L11/EZH2/XIAP/ETS1/MAPK8/ARID1A/BID/PTK2/ATM/YWHAZ/FOXO3/FN1/AXL/CDKN1A/CAV1/CASP3/ANXA1/STAT3/IGFBP2/ITGA2/RET/SQSTM1/GAB2/NDRG1/LCN2/GATA3
## GO:0008152 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/ITGA2/RET/SQSTM1/CCNE2/INPP4B/LCN2/RAD50/GATA3
## GO:0009987 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3
## GO:0016032 BCL2/AKT1/JUN/AXL/EGFR/CAV1/ITGA2
## GO:0022414 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/ATM/FOXO3/AXL/EGFR/CASP3/IGFBP2/ITGA2/CCNE2/RAD50/GATA3
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 34 34/53
## GO:0044423 GO:0044423 virion component 0 0/53
## GO:0110165 GO:0110165 cellular anatomical entity 53 53/53
## geneID
## GO:0032991 ESR1/MET/BAP1/BCL2/CCND1/NOTCH3/AKT1/IGF1R/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/ETS1/ARID1A/ATM/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/STAT3/FOXM1/ITGA2/RET/CCNE2/RAD50/GATA3
## GO:0044423
## GO:0110165 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/NRAS/PTK2/ATM/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/27
## GO:0003824 GO:0003824 catalytic activity 12 12/27
## GO:0005198 GO:0005198 structural molecule activity 1 1/27
## GO:0005215 GO:0005215 transporter activity 2 2/27
## GO:0005488 GO:0005488 binding 27 27/27
## GO:0009055 GO:0009055 electron transfer activity 0 0/27
## geneID
## GO:0003774
## GO:0003824 MET/G6PD/KRAS/CCND1/AKT1/IGF1R/XIAP/MAPK8/CHEK1/NCOA3/FASN/VHL
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/RB1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/CDH2/GATA3/CTNNB1/RBM15/FASN/VHL
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/27
## GO:0002376 GO:0002376 immune system process 18 18/27
## GO:0008152 GO:0008152 metabolic process 25 25/27
## GO:0009987 GO:0009987 cellular process 27 27/27
## GO:0016032 GO:0016032 viral process 2 2/27
## GO:0022414 GO:0022414 reproductive process 8 8/27
## geneID
## GO:0000003 ESR1/BCL2/AKT1/IGF1R/RB1/FOXO3/GATA3/CTNNB1
## GO:0002376 ESR1/G6PD/BCL2/AKT1/IGF1R/RB1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/FN1/GAB2/GATA3/CTNNB1/RBM15
## GO:0008152 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/RB1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GATA3/CTNNB1/RBM15/FASN/VHL
## GO:0009987 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/RB1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/CDH2/GATA3/CTNNB1/RBM15/FASN/VHL
## GO:0016032 BCL2/AKT1
## GO:0022414 ESR1/BCL2/AKT1/IGF1R/RB1/FOXO3/GATA3/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 18 18/27
## GO:0044423 GO:0044423 virion component 0 0/27
## GO:0110165 GO:0110165 cellular anatomical entity 27 27/27
## geneID
## GO:0032991 ESR1/MET/BCL2/CCND1/NOTCH3/AKT1/IGF1R/RB1/ETS1/ARID1A/FOXO3/CHEK1/FN1/NCOA3/CDH2/GATA3/CTNNB1/RBM15
## GO:0044423
## GO:0110165 ESR1/MET/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/RB1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/GAB2/CDH2/GATA3/CTNNB1/RBM15/FASN/VHL
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/23
## GO:0003824 GO:0003824 catalytic activity 14 14/23
## GO:0005198 GO:0005198 structural molecule activity 1 1/23
## GO:0005215 GO:0005215 transporter activity 0 0/23
## GO:0005488 GO:0005488 binding 23 23/23
## GO:0009055 GO:0009055 electron transfer activity 0 0/23
## geneID
## GO:0003774 MYH9
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/CCND1/MAPK1
## GO:0005198 FN1
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/FN1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/23
## GO:0002376 GO:0002376 immune system process 14 14/23
## GO:0008152 GO:0008152 metabolic process 21 21/23
## GO:0009987 GO:0009987 cellular process 23 23/23
## GO:0016032 GO:0016032 viral process 3 3/23
## GO:0022414 GO:0022414 reproductive process 8 8/23
## geneID
## GO:0000003 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/MAPK1/ITGA2/FN1
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ITGA2/FN1
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/FN1
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 14 14/23
## GO:0044423 GO:0044423 virion component 0 0/23
## GO:0110165 GO:0110165 cellular anatomical entity 23 23/23
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CCND1/YAP1/ITGA2/FN1
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/FN1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/15
## GO:0003824 GO:0003824 catalytic activity 12 12/15
## GO:0005198 GO:0005198 structural molecule activity 0 0/15
## GO:0005215 GO:0005215 transporter activity 0 0/15
## GO:0005488 GO:0005488 binding 15 15/15
## GO:0009055 GO:0009055 electron transfer activity 0 0/15
## geneID
## GO:0003774
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ATM/CDKN1A/G6PD
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/G6PD
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 5 5/15
## GO:0002376 GO:0002376 immune system process 10 10/15
## GO:0008152 GO:0008152 metabolic process 14 14/15
## GO:0009987 GO:0009987 cellular process 15 15/15
## GO:0016032 GO:0016032 viral process 3 3/15
## GO:0022414 GO:0022414 reproductive process 5 5/15
## geneID
## GO:0000003 AKT1/MTOR/PTEN/ATM/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/PTK2/ETS1/ATM/CDKN1A/ITGA2/G6PD
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/G6PD
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/G6PD
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/PTEN/ATM/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 8 8/15
## GO:0044423 GO:0044423 virion component 0 0/15
## GO:0110165 GO:0110165 cellular anatomical entity 15 15/15
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/ETS1/ATM/CDKN1A/STAT5A/ITGA2
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/G6PD
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/11
## GO:0003824 GO:0003824 catalytic activity 6 6/11
## GO:0005198 GO:0005198 structural molecule activity 0 0/11
## GO:0005215 GO:0005215 transporter activity 0 0/11
## GO:0005488 GO:0005488 binding 11 11/11
## GO:0009055 GO:0009055 electron transfer activity 0 0/11
## geneID
## GO:0003774
## GO:0003824 XIAP/MAPK8/CDKN1A/NCOA3/TGM2/FASN
## GO:0005198
## GO:0005215
## GO:0005488 ETS1/XIAP/MAPK8/ARID1A/BID/CDKN1A/STAT5A/NCOA3/GAB2/TGM2/FASN
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 0 0/11
## GO:0002376 GO:0002376 immune system process 7 7/11
## GO:0008152 GO:0008152 metabolic process 10 10/11
## GO:0009987 GO:0009987 cellular process 11 11/11
## GO:0016032 GO:0016032 viral process 0 0/11
## GO:0022414 GO:0022414 reproductive process 0 0/11
## geneID
## GO:0000003
## GO:0002376 ETS1/XIAP/MAPK8/ARID1A/BID/CDKN1A/GAB2
## GO:0008152 ETS1/XIAP/MAPK8/ARID1A/BID/CDKN1A/STAT5A/NCOA3/TGM2/FASN
## GO:0009987 ETS1/XIAP/MAPK8/ARID1A/BID/CDKN1A/STAT5A/NCOA3/GAB2/TGM2/FASN
## GO:0016032
## GO:0022414
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 6 6/11
## GO:0044423 GO:0044423 virion component 0 0/11
## GO:0110165 GO:0110165 cellular anatomical entity 11 11/11
## geneID
## GO:0032991 ETS1/ARID1A/CDKN1A/STAT5A/NCOA3/TGM2
## GO:0044423
## GO:0110165 ETS1/XIAP/MAPK8/ARID1A/BID/CDKN1A/STAT5A/NCOA3/GAB2/TGM2/FASN
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/45
## GO:0003824 GO:0003824 catalytic activity 23 23/45
## GO:0005198 GO:0005198 structural molecule activity 0 0/45
## GO:0005215 GO:0005215 transporter activity 2 2/45
## GO:0005488 GO:0005488 binding 45 45/45
## GO:0009055 GO:0009055 electron transfer activity 0 0/45
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/PARP1/IGF1R/RAB25/EZH2/RAB11B/NCOA3/CCND1/MAPK1/CASP3/MSH6/PIK3CA/MSH2/PRKAA1/G6PD
## GO:0005198
## GO:0005215 IGF1R/BCL2
## GO:0005488 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/PARP1/IGF1R/CCNE2/RAB25/EZH2/RAB11B/NCOA3/GAB2/CCND1/YAP1/MAPK1/ANLN/ITGA2/BCL2/MYC/CASP3/BCL2L11/MSH6/PIK3CA/SRSF1/MSH2/CDH1/CTNNB1/IGFBP2/PRKAA1/YWHAB/G6PD/TFRC/PXN/NF2
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 17 17/45
## GO:0002376 GO:0002376 immune system process 28 28/45
## GO:0008152 GO:0008152 metabolic process 38 38/45
## GO:0009987 GO:0009987 cellular process 45 45/45
## GO:0016032 GO:0016032 viral process 3 3/45
## GO:0022414 GO:0022414 reproductive process 17 17/45
## geneID
## GO:0000003 MYH9/FOXO3/ATM/CASP8/PTEN/PARP1/IGF1R/CCNE2/ITGA2/BCL2/CASP3/BCL2L11/MSH6/PIK3CA/MSH2/CTNNB1/IGFBP2
## GO:0002376 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/PARP1/IGF1R/EZH2/GAB2/MAPK1/ITGA2/BCL2/MYC/CASP3/BCL2L11/MSH6/PIK3CA/MSH2/CTNNB1/IGFBP2/G6PD/TFRC
## GO:0008152 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/PARP1/IGF1R/CCNE2/EZH2/RAB11B/NCOA3/CCND1/YAP1/MAPK1/ITGA2/BCL2/MYC/CASP3/MSH6/PIK3CA/SRSF1/MSH2/CDH1/CTNNB1/PRKAA1/YWHAB/G6PD/TFRC/NF2
## GO:0009987 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/PARP1/IGF1R/CCNE2/RAB25/EZH2/RAB11B/NCOA3/GAB2/CCND1/YAP1/MAPK1/ANLN/ITGA2/BCL2/MYC/CASP3/BCL2L11/MSH6/PIK3CA/SRSF1/MSH2/CDH1/CTNNB1/IGFBP2/PRKAA1/YWHAB/G6PD/TFRC/PXN/NF2
## GO:0016032 ITGA2/BCL2/TFRC
## GO:0022414 MYH9/FOXO3/ATM/CASP8/PTEN/PARP1/IGF1R/CCNE2/ITGA2/BCL2/CASP3/BCL2L11/MSH6/PIK3CA/MSH2/CTNNB1/IGFBP2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 28 28/45
## GO:0044423 GO:0044423 virion component 0 0/45
## GO:0110165 GO:0110165 cellular anatomical entity 45 45/45
## geneID
## GO:0032991 ETS1/ARID1A/MYH9/CDKN1A/FOXO3/ATM/CASP8/PARP1/IGF1R/CCNE2/EZH2/NCOA3/CCND1/YAP1/ITGA2/BCL2/MYC/CASP3/BCL2L11/MSH6/PIK3CA/SRSF1/MSH2/CDH1/CTNNB1/PRKAA1/TFRC/PXN
## GO:0044423
## GO:0110165 ETS1/XIAP/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/PARP1/IGF1R/CCNE2/RAB25/EZH2/RAB11B/NCOA3/GAB2/CCND1/YAP1/MAPK1/ANLN/ITGA2/BCL2/MYC/CASP3/BCL2L11/MSH6/PIK3CA/SRSF1/MSH2/CDH1/CTNNB1/IGFBP2/PRKAA1/YWHAB/G6PD/TFRC/PXN/NF2
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/17
## GO:0003824 GO:0003824 catalytic activity 12 12/17
## GO:0005198 GO:0005198 structural molecule activity 0 0/17
## GO:0005215 GO:0005215 transporter activity 0 0/17
## GO:0005488 GO:0005488 binding 17 17/17
## GO:0009055 GO:0009055 electron transfer activity 0 0/17
## geneID
## GO:0003774
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ATM/CDKN1A/CCND1
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/CDH2/CTNNB1/CCND1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 6 6/17
## GO:0002376 GO:0002376 immune system process 10 10/17
## GO:0008152 GO:0008152 metabolic process 15 15/17
## GO:0009987 GO:0009987 cellular process 17 17/17
## GO:0016032 GO:0016032 viral process 3 3/17
## GO:0022414 GO:0022414 reproductive process 6 6/17
## geneID
## GO:0000003 AKT1/MTOR/PTEN/ATM/ITGA2/CTNNB1
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/PTK2/ETS1/ATM/CDKN1A/ITGA2/CTNNB1
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/CTNNB1/CCND1
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/CDH2/CTNNB1/CCND1
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/PTEN/ATM/ITGA2/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 11 11/17
## GO:0044423 GO:0044423 virion component 0 0/17
## GO:0110165 GO:0110165 cellular anatomical entity 17 17/17
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/ETS1/ATM/CDKN1A/STAT5A/ITGA2/CDH2/CTNNB1/CCND1
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/PTEN/KRAS/NRAS/PTK2/ETS1/ATM/CDKN1A/STAT5A/ITGA2/CDH2/CTNNB1/CCND1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/32
## GO:0003824 GO:0003824 catalytic activity 16 16/32
## GO:0005198 GO:0005198 structural molecule activity 1 1/32
## GO:0005215 GO:0005215 transporter activity 1 1/32
## GO:0005488 GO:0005488 binding 32 32/32
## GO:0009055 GO:0009055 electron transfer activity 0 0/32
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CCND1/PIK3R1/CHEK1/IGF1R/TUBA1B/NRAS/ACACA/NCOA3/EEF2/G6PD/FASN/VHL/GAPDH/MSH6
## GO:0005198 TUBA1B
## GO:0005215 IGF1R
## GO:0005488 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/MYH9/CDKN1B/BCL2L11/ERBB3/FOXO3/ACACA/NCOA3/GAB2/MYC/EIF4G1/CDH2/EEF2/SQSTM1/G6PD/RBM15/FASN/VHL/GAPDH/MSH6
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 7 7/32
## GO:0002376 GO:0002376 immune system process 18 18/32
## GO:0008152 GO:0008152 metabolic process 27 27/32
## GO:0009987 GO:0009987 cellular process 32 32/32
## GO:0016032 GO:0016032 viral process 0 0/32
## GO:0022414 GO:0022414 reproductive process 7 7/32
## geneID
## GO:0000003 RB1/IGF1R/MYH9/CDKN1B/BCL2L11/FOXO3/MSH6
## GO:0002376 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/PIK3R1/IGF1R/MYH9/BCL2L11/FOXO3/GAB2/MYC/SQSTM1/G6PD/RBM15/GAPDH/MSH6
## GO:0008152 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/MYH9/CDKN1B/ERBB3/FOXO3/ACACA/NCOA3/MYC/EIF4G1/EEF2/SQSTM1/G6PD/RBM15/FASN/VHL/GAPDH/MSH6
## GO:0009987 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/MYH9/CDKN1B/BCL2L11/ERBB3/FOXO3/ACACA/NCOA3/GAB2/MYC/EIF4G1/CDH2/EEF2/SQSTM1/G6PD/RBM15/FASN/VHL/GAPDH/MSH6
## GO:0016032
## GO:0022414 RB1/IGF1R/MYH9/CDKN1B/BCL2L11/FOXO3/MSH6
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 21 21/32
## GO:0044423 GO:0044423 virion component 0 0/32
## GO:0110165 GO:0110165 cellular anatomical entity 32 32/32
## geneID
## GO:0032991 RB1/ETS1/ARID1A/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/MYH9/CDKN1B/BCL2L11/ERBB3/FOXO3/NCOA3/MYC/EIF4G1/CDH2/EEF2/RBM15/GAPDH/MSH6
## GO:0044423
## GO:0110165 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/MYH9/CDKN1B/BCL2L11/ERBB3/FOXO3/ACACA/NCOA3/GAB2/MYC/EIF4G1/CDH2/EEF2/SQSTM1/G6PD/RBM15/FASN/VHL/GAPDH/MSH6
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 0 0/52
## GO:0003824 GO:0003824 catalytic activity 22 22/52
## GO:0005198 GO:0005198 structural molecule activity 1 1/52
## GO:0005215 GO:0005215 transporter activity 2 2/52
## GO:0005488 GO:0005488 binding 52 52/52
## GO:0009055 GO:0009055 electron transfer activity 0 0/52
## geneID
## GO:0003774
## GO:0003824 MET/BAP1/G6PD/KRAS/CCND1/AKT1/IGF1R/PTEN/EZH2/XIAP/MAPK8/CHEK1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CASP3/ASNS/RET/INPP4B/RAD50
## GO:0005198 FN1
## GO:0005215 BCL2/IGF1R
## GO:0005488 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3/CTNNB1
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 19 19/52
## GO:0002376 GO:0002376 immune system process 33 33/52
## GO:0008152 GO:0008152 metabolic process 48 48/52
## GO:0009987 GO:0009987 cellular process 52 52/52
## GO:0016032 GO:0016032 viral process 7 7/52
## GO:0022414 GO:0022414 reproductive process 18 18/52
## geneID
## GO:0000003 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/FOXO3/AXL/EGFR/CASP3/STAT3/IGFBP2/ITGA2/CCNE2/RAD50/GATA3/CTNNB1
## GO:0002376 ESR1/BAP1/G6PD/BCL2/AKT1/IGF1R/MYC/BCL2L11/EZH2/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/FN1/AXL/PTK2/CDKN1A/CAV1/CASP3/ANXA1/STAT3/IGFBP2/ITGA2/RET/SQSTM1/GAB2/NDRG1/LCN2/GATA3/CTNNB1
## GO:0008152 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/ITGA2/RET/SQSTM1/CCNE2/INPP4B/LCN2/RAD50/GATA3/CTNNB1
## GO:0009987 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3/CTNNB1
## GO:0016032 BCL2/AKT1/JUN/AXL/EGFR/CAV1/ITGA2
## GO:0022414 ESR1/ERRFI1/BCL2/AKT1/IGF1R/PTEN/CDKN1B/BCL2L11/FOXO3/AXL/EGFR/CASP3/IGFBP2/ITGA2/CCNE2/RAD50/GATA3/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 34 34/52
## GO:0044423 GO:0044423 virion component 0 0/52
## GO:0110165 GO:0110165 cellular anatomical entity 52 52/52
## geneID
## GO:0032991 ESR1/MET/BAP1/BCL2/CCND1/NOTCH3/AKT1/IGF1R/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/ETS1/ARID1A/FOXO3/CHEK1/FN1/NCOA3/AXL/CDKN1A/EGFR/CAV1/CASP3/STAT3/FOXM1/ITGA2/RET/CCNE2/RAD50/GATA3/CTNNB1
## GO:0044423
## GO:0110165 ESR1/MET/BAP1/ERRFI1/G6PD/BCL2/KRAS/CCND1/NOTCH3/AKT1/IGF1R/PTEN/CDKN1B/IRS1/MYC/JUN/BCL2L11/EZH2/SHC1/XIAP/ETS1/MAPK8/ARID1A/BID/YWHAZ/FOXO3/CHEK1/FN1/NCOA3/AXL/PTK2/CDKN1A/EGFR/CAV1/CASP3/ANXA1/TFF1/STAT3/ASNS/FOXM1/IGFBP2/ITGA2/RET/SQSTM1/CCNE2/GAB2/NDRG1/INPP4B/LCN2/RAD50/GATA3/CTNNB1
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/25
## GO:0003824 GO:0003824 catalytic activity 16 16/25
## GO:0005198 GO:0005198 structural molecule activity 0 0/25
## GO:0005215 GO:0005215 transporter activity 0 0/25
## GO:0005488 GO:0005488 binding 25 25/25
## GO:0009055 GO:0009055 electron transfer activity 0 0/25
## geneID
## GO:0003774 MYH9
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/CCND1/MAPK1/TGM2/G6PD
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/ERBB3/TGM2/G6PD
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/25
## GO:0002376 GO:0002376 immune system process 14 14/25
## GO:0008152 GO:0008152 metabolic process 23 23/25
## GO:0009987 GO:0009987 cellular process 25 25/25
## GO:0016032 GO:0016032 viral process 3 3/25
## GO:0022414 GO:0022414 reproductive process 8 8/25
## geneID
## GO:0000003 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/MAPK1/ITGA2/G6PD
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ITGA2/ERBB3/TGM2/G6PD
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/ERBB3/TGM2/G6PD
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 15 15/25
## GO:0044423 GO:0044423 virion component 0 0/25
## GO:0110165 GO:0110165 cellular anatomical entity 25 25/25
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CCND1/YAP1/ITGA2/ERBB3/TGM2
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/ERBB3/TGM2/G6PD
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/25
## GO:0003824 GO:0003824 catalytic activity 17 17/25
## GO:0005198 GO:0005198 structural molecule activity 0 0/25
## GO:0005215 GO:0005215 transporter activity 0 0/25
## GO:0005488 GO:0005488 binding 25 25/25
## GO:0009055 GO:0009055 electron transfer activity 0 0/25
## geneID
## GO:0003774 MYH9
## GO:0003824 HSPA1A/AKT1/VHL/MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/KRAS/NRAS/PTK2/CCND1/MAPK1/TGM2/G6PD/FASN
## GO:0005198
## GO:0005215
## GO:0005488 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/25
## GO:0002376 GO:0002376 immune system process 14 14/25
## GO:0008152 GO:0008152 metabolic process 23 23/25
## GO:0009987 GO:0009987 cellular process 25 25/25
## GO:0016032 GO:0016032 viral process 3 3/25
## GO:0022414 GO:0022414 reproductive process 8 8/25
## geneID
## GO:0000003 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## GO:0002376 HSPA1A/AKT1/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/PTK2/ETS1/MAPK1/ITGA2/G6PD
## GO:0008152 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ITGA2/TGM2/G6PD/FASN
## GO:0009987 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## GO:0016032 HSPA1A/AKT1/ITGA2
## GO:0022414 AKT1/MTOR/MYH9/FOXO3/ATM/CASP8/PTEN/ITGA2
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 14 14/25
## GO:0044423 GO:0044423 virion component 0 0/25
## GO:0110165 GO:0110165 cellular anatomical entity 25 25/25
## geneID
## GO:0032991 HSPA1A/AKT1/MTOR/MYH9/CDKN1A/FOXO3/ATM/CASP8/ETS1/STAT5A/CCND1/YAP1/ITGA2/TGM2
## GO:0044423
## GO:0110165 HSPA1A/AKT1/VHL/MTOR/MAPK8/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/PTEN/KRAS/NRAS/PTK2/ETS1/STAT5A/CCND1/YAP1/MAPK1/ANLN/ITGA2/TGM2/G6PD/FASN
## ID Description Count GeneRatio
## GO:0003774 GO:0003774 cytoskeletal motor activity 1 1/29
## GO:0003824 GO:0003824 catalytic activity 15 15/29
## GO:0005198 GO:0005198 structural molecule activity 1 1/29
## GO:0005215 GO:0005215 transporter activity 1 1/29
## GO:0005488 GO:0005488 binding 29 29/29
## GO:0009055 GO:0009055 electron transfer activity 0 0/29
## geneID
## GO:0003774 MYH9
## GO:0003824 XIAP/MAPK8/CDKN1A/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/TUBA1B/NRAS/NCOA3/MAPK1/FASN/VHL
## GO:0005198 TUBA1B
## GO:0005215 IGF1R
## GO:0005488 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/NCOA3/GAB2/YAP1/MAPK1/ANLN/IGFBP2/FASN/CTNNB1/TTF1/VHL
## GO:0009055
## ID Description Count GeneRatio
## GO:0000003 GO:0000003 reproduction 8 8/29
## GO:0002376 GO:0002376 immune system process 17 17/29
## GO:0008152 GO:0008152 metabolic process 24 24/29
## GO:0009987 GO:0009987 cellular process 29 29/29
## GO:0016032 GO:0016032 viral process 0 0/29
## GO:0022414 GO:0022414 reproductive process 8 8/29
## geneID
## GO:0000003 RB1/MYH9/FOXO3/ATM/CASP8/IGF1R/IGFBP2/CTNNB1
## GO:0002376 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/PIK3R1/IGF1R/GAB2/MAPK1/IGFBP2/CTNNB1
## GO:0008152 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/NCOA3/YAP1/MAPK1/FASN/CTNNB1/TTF1/VHL
## GO:0009987 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/NCOA3/GAB2/YAP1/MAPK1/ANLN/IGFBP2/FASN/CTNNB1/TTF1/VHL
## GO:0016032
## GO:0022414 RB1/MYH9/FOXO3/ATM/CASP8/IGF1R/IGFBP2/CTNNB1
## ID Description Count GeneRatio
## GO:0032991 GO:0032991 protein-containing complex 16 16/29
## GO:0044423 GO:0044423 virion component 0 0/29
## GO:0110165 GO:0110165 cellular anatomical entity 29 29/29
## geneID
## GO:0032991 RB1/ETS1/ARID1A/MYH9/CDKN1A/FOXO3/ATM/CASP8/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/NCOA3/YAP1/CTNNB1
## GO:0044423
## GO:0110165 RB1/XIAP/ETS1/MAPK8/ARID1A/BID/MYH9/CDKN1A/FOXO3/ATM/CASP8/MACC1/CCND1/PIK3R1/CHEK1/IGF1R/SRSF1/TUBA1B/NRAS/NCOA3/GAB2/YAP1/MAPK1/ANLN/IGFBP2/FASN/CTNNB1/TTF1/VHLbarplot(ggo_MF[[1]], title = "groupGO, Molecular Function, Bicluster 1 of 1")
barplot(ggo_MF[[2]], title = "groupGO, Molecular Function, Bicluster 1 of 2")
barplot(ggo_MF[[3]], title = "groupGO, Molecular Function, Bicluster 2 of 2")
barplot(ggo_MF[[4]], title = "groupGO, Molecular Function, Bicluster 1 of 3")
barplot(ggo_MF[[5]], title = "groupGO, Molecular Function, Bicluster 2 of 3")
barplot(ggo_MF[[6]], title = "groupGO, Molecular Function, Bicluster 3 of 3")
barplot(ggo_MF[[7]], title = "groupGO, Molecular Function, Bicluster 1 of 5")
barplot(ggo_MF[[8]], title = "groupGO, Molecular Function, Bicluster 2 of 5")
barplot(ggo_MF[[9]], title = "groupGO, Molecular Function, Bicluster 3 of 5")
barplot(ggo_MF[[10]], title = "groupGO, Molecular Function, Bicluster 4 of 5")
barplot(ggo_MF[[11]], title = "groupGO, Molecular Function, Bicluster 5 of 5")
barplot(ggo_MF[[12]], title = "groupGO, Molecular Function, Bicluster 1 of 10")
barplot(ggo_MF[[13]], title = "groupGO, Molecular Function, Bicluster 2 of 10")
barplot(ggo_MF[[14]], title = "groupGO, Molecular Function, Bicluster 3 of 10")
barplot(ggo_MF[[15]], title = "groupGO, Molecular Function, Bicluster 4 of 10")
barplot(ggo_MF[[16]], title = "groupGO, Molecular Function, Bicluster 5 of 10")
barplot(ggo_MF[[17]], title = "groupGO, Molecular Function, Bicluster 6 of 10")
barplot(ggo_MF[[18]], title = "groupGO, Molecular Function, Bicluster 7 of 10")
barplot(ggo_MF[[19]], title = "groupGO, Molecular Function, Bicluster 8 of 10")
barplot(ggo_MF[[20]], title = "groupGO, Molecular Function, Bicluster 9 of 10")
barplot(ggo_MF[[21]], title = "groupGO, Molecular Function, Bicluster 10 of 10")
barplot(ggo_BP[[1]], title = "groupGO, Biological Process, Bicluster 1 of 1")
barplot(ggo_BP[[2]], title = "groupGO, Biological Process, Bicluster 1 of 2")
barplot(ggo_BP[[3]], title = "groupGO, Biological Process, Bicluster 2 of 2")
barplot(ggo_BP[[4]], title = "groupGO, Biological Process, Bicluster 1 of 3")
barplot(ggo_BP[[5]], title = "groupGO, Biological Process, Bicluster 2 of 3")
barplot(ggo_BP[[6]], title = "groupGO, Biological Process, Bicluster 3 of 3")
barplot(ggo_BP[[7]], title = "groupGO, Biological Process, Bicluster 1 of 5")
barplot(ggo_BP[[8]], title = "groupGO, Biological Process, Bicluster 2 of 5")
barplot(ggo_BP[[9]], title = "groupGO, Biological Process, Bicluster 3 of 5")
barplot(ggo_BP[[10]], title = "groupGO, Biological Process, Bicluster 4 of 5")
barplot(ggo_BP[[11]], title = "groupGO, Biological Process, Bicluster 5 of 5")
barplot(ggo_BP[[12]], title = "groupGO, Biological Process, Bicluster 1 of 10")
barplot(ggo_BP[[13]], title = "groupGO, Biological Process, Bicluster 2 of 10")
barplot(ggo_BP[[14]], title = "groupGO, Biological Process, Bicluster 3 of 10")
barplot(ggo_BP[[15]], title = "groupGO, Biological Process, Bicluster 4 of 10")
barplot(ggo_BP[[16]], title = "groupGO, Biological Process, Bicluster 5 of 10")
barplot(ggo_BP[[17]], title = "groupGO, Biological Process, Bicluster 6 of 10")
barplot(ggo_BP[[18]], title = "groupGO, Biological Process, Bicluster 7 of 10")
barplot(ggo_BP[[19]], title = "groupGO, Biological Process, Bicluster 8 of 10")
barplot(ggo_BP[[20]], title = "groupGO, Biological Process, Bicluster 9 of 10")
barplot(ggo_BP[[21]], title = "groupGO, Biological Process, Bicluster 10 of 10")
barplot(ggo_CC[[1]], title = "groupGO, Cellular Component, Bicluster 1 of 1")
barplot(ggo_CC[[2]], title = "groupGO, Cellular Component, Bicluster 1 of 2")
barplot(ggo_CC[[3]], title = "groupGO, Cellular Component, Bicluster 2 of 2")
barplot(ggo_CC[[4]], title = "groupGO, Cellular Component, Bicluster 1 of 3")
barplot(ggo_CC[[5]], title = "groupGO, Cellular Component, Bicluster 2 of 3")
barplot(ggo_CC[[6]], title = "groupGO, Cellular Component, Bicluster 3 of 3")
barplot(ggo_CC[[7]], title = "groupGO, Cellular Component, Bicluster 1 of 5")
barplot(ggo_CC[[8]], title = "groupGO, Cellular Component, Bicluster 2 of 5")
barplot(ggo_CC[[9]], title = "groupGO, Cellular Component, Bicluster 3 of 5")
barplot(ggo_CC[[10]], title = "groupGO, Cellular Component, Bicluster 4 of 5")
barplot(ggo_CC[[11]], title = "groupGO, Cellular Component, Bicluster 5 of 5")
barplot(ggo_CC[[12]], title = "groupGO, Cellular Component, Bicluster 1 of 10")
barplot(ggo_CC[[13]], title = "groupGO, Cellular Component, Bicluster 2 of 10")
barplot(ggo_CC[[14]], title = "groupGO, Cellular Component, Bicluster 3 of 10")
barplot(ggo_CC[[15]], title = "groupGO, Cellular Component, Bicluster 4 of 10")
barplot(ggo_CC[[16]], title = "groupGO, Cellular Component, Bicluster 5 of 10")
barplot(ggo_CC[[17]], title = "groupGO, Cellular Component, Bicluster 6 of 10")
barplot(ggo_CC[[18]], title = "groupGO, Cellular Component, Bicluster 7 of 10")
barplot(ggo_CC[[19]], title = "groupGO, Cellular Component, Bicluster 8 of 10")
barplot(ggo_CC[[20]], title = "groupGO, Cellular Component, Bicluster 9 of 10")
barplot(ggo_CC[[21]], title = "groupGO, Cellular Component, Bicluster 10 of 10")
B. GO Over-Representation
ego_MF <- list()#GO enrichment of a geneset for Molecular Function
ego_BP <- list()#GO enrichment of a geneset for Biological Process
ego_CC <- list()#GO enrichment of a geneset for Cellular Component
for(z in 1:length(geneNames)){
print(z)
input <- geneNames[[z]]
ego_MF[[z]] <- enrichGO(
gene = input,
OrgDb = org.Hs.eg.db,
ont = "MF",
pAdjustMethod = "BH",
keyType="SYMBOL",
pvalueCutoff = 0.05,
qvalueCutoff = 0.05,
minGSSize = 2,
readable = TRUE)
ego_BP[[z]] <- enrichGO(
gene = input,
OrgDb = org.Hs.eg.db,
ont = "BP",
pAdjustMethod = "BH",
keyType="SYMBOL",
pvalueCutoff = 0.05,
qvalueCutoff = 0.05,
minGSSize = 2,
readable = TRUE)
ego_CC[[z]] <- enrichGO(
gene = input,
OrgDb = org.Hs.eg.db,
ont = "CC",
pAdjustMethod = "BH",
keyType="SYMBOL",
pvalueCutoff = 0.05,
qvalueCutoff = 0.05,
minGSSize = 2,
readable = TRUE)
}## [1] 1
## [1] 2
## [1] 3
## [1] 4
## [1] 5
## [1] 6
## [1] 7
## [1] 8
## [1] 9
## [1] 10
## [1] 11
## [1] 12
## [1] 13
## [1] 14
## [1] 15
## [1] 16
## [1] 17
## [1] 18
## [1] 19
## [1] 20
## [1] 21for(z in 1:length(geneNames)){
print(head(ego_MF[[z]]))
print(head(ego_BP[[z]]))
print(head(ego_CC[[z]]))
}## ID Description
## GO:0106310 GO:0106310 protein serine kinase activity
## GO:0004674 GO:0004674 protein serine/threonine kinase activity
## GO:0004707 GO:0004707 MAP kinase activity
## GO:0070064 GO:0070064 proline-rich region binding
## GO:0042826 GO:0042826 histone deacetylase binding
## GO:0030291 GO:0030291 protein serine/threonine kinase inhibitor activity
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0106310 5/24 363/18522 0.0000879512 0.009839616 0.004097469
## GO:0004674 5/24 427/18522 0.0001882293 0.009839616 0.004097469
## GO:0004707 2/24 16/18522 0.0001909646 0.009839616 0.004097469
## GO:0070064 2/24 17/18522 0.0002162553 0.009839616 0.004097469
## GO:0042826 3/24 128/18522 0.0005867501 0.021357704 0.008893896
## GO:0030291 2/24 37/18522 0.0010423909 0.024142433 0.010053529
## geneID Count
## GO:0106310 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004674 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004707 MAPK8/MAPK1 2
## GO:0070064 CCND1/YAP1 2
## GO:0042826 HSPA1A/MAPK8/CCND1 3
## GO:0030291 AKT1/CDKN1A 2
## ID Description GeneRatio
## GO:0010631 GO:0010631 epithelial cell migration 9/24
## GO:0090132 GO:0090132 epithelium migration 9/24
## GO:0090130 GO:0090130 tissue migration 9/24
## GO:0062197 GO:0062197 cellular response to chemical stress 8/24
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/24
## GO:0104004 GO:0104004 cellular response to environmental stimulus 8/24
## BgRatio pvalue p.adjust qvalue
## GO:0010631 375/18888 4.378338e-10 3.493448e-07 1.434282e-07
## GO:0090132 378/18888 4.697252e-10 3.493448e-07 1.434282e-07
## GO:0090130 383/18888 5.274456e-10 3.493448e-07 1.434282e-07
## GO:0062197 311/18888 2.888334e-09 1.434780e-06 5.890681e-07
## GO:0071214 334/18888 5.054206e-09 1.495343e-06 6.139332e-07
## GO:0104004 334/18888 5.054206e-09 1.495343e-06 6.139332e-07
## geneID Count
## GO:0010631 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090130 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0062197 HSPA1A/AKT1/MTOR/MAPK8/FOXO3/ATM/MAPK1/G6PD 8
## GO:0071214 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## GO:0104004 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 7/24 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 7/24 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/24 4/19894
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 4/24 161/19894
## GO:0070938 GO:0070938 contractile ring 2/24 10/19894
## GO:0098562 GO:0098562 cytoplasmic side of membrane 4/24 199/19894
## pvalue p.adjust qvalue
## GO:0005925 4.585265e-07 3.409715e-05 1.921762e-05
## GO:0030055 5.369630e-07 3.409715e-05 1.921762e-05
## GO:0005826 8.356555e-06 3.537608e-04 1.993845e-04
## GO:0009898 3.869971e-05 1.228716e-03 6.925211e-04
## GO:0070938 6.239748e-05 1.584896e-03 8.932692e-04
## GO:0098562 8.823680e-05 1.867679e-03 1.052650e-03
## geneID Count
## GO:0005925 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0030055 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0005826 MYH9/ANLN 2
## GO:0009898 MYH9/PTEN/KRAS/G6PD 4
## GO:0070938 MYH9/ANLN 2
## GO:0098562 MYH9/PTEN/KRAS/G6PD 4
## ID Description GeneRatio
## GO:0019903 GO:0019903 protein phosphatase binding 5/26
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 7/26
## GO:0019902 GO:0019902 phosphatase binding 5/26
## GO:0001221 GO:0001221 transcription coregulator binding 4/26
## GO:0016922 GO:0016922 nuclear receptor binding 4/26
## GO:0001222 GO:0001222 transcription corepressor binding 3/26
## BgRatio pvalue p.adjust qvalue
## GO:0019903 142/18522 1.425899e-06 0.0002965870 0.0001380871
## GO:0140297 478/18522 3.136151e-06 0.0003261597 0.0001518557
## GO:0019902 189/18522 5.798930e-06 0.0004020591 0.0001871935
## GO:0001221 114/18522 1.832807e-05 0.0009530599 0.0004437323
## GO:0016922 136/18522 3.667174e-05 0.0010300946 0.0004795987
## GO:0001222 47/18522 3.821623e-05 0.0010300946 0.0004795987
## geneID Count
## GO:0019903 MET/BCL2/MAPK8/PTK2/CTNNB1 5
## GO:0140297 ESR1/BCL2/ETS1/ARID1A/YWHAZ/NCOA3/CTNNB1 7
## GO:0019902 MET/BCL2/MAPK8/PTK2/CTNNB1 5
## GO:0001221 ESR1/ETS1/FOXO3/CTNNB1 4
## GO:0016922 ESR1/ARID1A/NCOA3/CTNNB1 4
## GO:0001222 ESR1/ETS1/CTNNB1 3
## ID Description
## GO:0051402 GO:0051402 neuron apoptotic process
## GO:2000045 GO:2000045 regulation of G1/S transition of mitotic cell cycle
## GO:1902806 GO:1902806 regulation of cell cycle G1/S phase transition
## GO:1901990 GO:1901990 regulation of mitotic cell cycle phase transition
## GO:0000082 GO:0000082 G1/S transition of mitotic cell cycle
## GO:0043523 GO:0043523 regulation of neuron apoptotic process
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0051402 9/26 292/18888 1.106898e-10 2.477237e-07 9.798956e-08
## GO:2000045 7/26 185/18888 4.338048e-09 4.854276e-06 1.920157e-06
## GO:1902806 7/26 211/18888 1.079622e-08 8.053980e-06 3.185832e-06
## GO:1901990 8/26 356/18888 1.710620e-08 9.570921e-06 3.785873e-06
## GO:0000082 7/26 234/18888 2.204334e-08 9.866597e-06 3.902831e-06
## GO:0043523 7/26 244/18888 2.939457e-08 1.096418e-05 4.336988e-06
## geneID Count
## GO:0051402 G6PD/BCL2/KRAS/CCND1/XIAP/BID/ATM/FOXO3/CTNNB1 9
## GO:2000045 BCL2/CCND1/AKT1/ARID1A/BID/PTEN/ATM 7
## GO:1902806 BCL2/CCND1/AKT1/ARID1A/BID/PTEN/ATM 7
## GO:1901990 BCL2/CCND1/AKT1/ARID1A/BID/PTEN/ATM/CHEK1 8
## GO:0000082 BCL2/CCND1/AKT1/ARID1A/BID/PTEN/ATM 7
## GO:0043523 G6PD/BCL2/KRAS/CCND1/ATM/FOXO3/CTNNB1 7
## ID Description
## GO:0017053 GO:0017053 transcription repressor complex
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0005741 GO:0005741 mitochondrial outer membrane
## GO:0005925 GO:0005925 focal adhesion
## GO:0030055 GO:0030055 cell-substrate junction
## GO:0031968 GO:0031968 organelle outer membrane
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0017053 3/26 77/19894 0.0001359483 0.005897502 0.0033461
## GO:0090571 2/26 15/19894 0.0001706628 0.005897502 0.0033461
## GO:0005741 4/26 219/19894 0.0001766044 0.005897502 0.0033461
## GO:0005925 5/26 421/19894 0.0001888698 0.005897502 0.0033461
## GO:0030055 5/26 431/19894 0.0002106347 0.005897502 0.0033461
## GO:0031968 4/26 248/19894 0.0002839739 0.005897502 0.0033461
## geneID Count
## GO:0017053 CCND1/FOXO3/CTNNB1 3
## GO:0090571 FOXO3/CTNNB1 2
## GO:0005741 BCL2/KRAS/BID/FOXO3 4
## GO:0005925 KRAS/PTK2/YWHAZ/ITGA2/CTNNB1 5
## GO:0030055 KRAS/PTK2/YWHAZ/ITGA2/CTNNB1 5
## GO:0031968 BCL2/KRAS/BID/FOXO3 4
## ID
## GO:0043559 GO:0043559
## GO:0120283 GO:0120283
## GO:0043560 GO:0043560
## GO:0140993 GO:0140993
## GO:0004707 GO:0004707
## GO:0005068 GO:0005068
## Description
## GO:0043559 insulin binding
## GO:0120283 protein serine/threonine kinase binding
## GO:0043560 insulin receptor substrate binding
## GO:0140993 histone modifying activity
## GO:0004707 MAP kinase activity
## GO:0005068 transmembrane receptor protein tyrosine kinase adaptor activity
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0043559 2/26 5/18522 1.889884e-05 0.003458487 0.001511907
## GO:0120283 2/26 7/18522 3.961902e-05 0.003625141 0.001584761
## GO:0043560 2/26 13/18522 1.463956e-04 0.006650055 0.002907128
## GO:0140993 4/26 207/18522 1.868027e-04 0.006650055 0.002907128
## GO:0004707 2/26 16/18522 2.246413e-04 0.006650055 0.002907128
## GO:0005068 2/26 17/18522 2.543737e-04 0.006650055 0.002907128
## geneID Count
## GO:0043559 PIK3R1/IGF1R 2
## GO:0120283 XIAP/MAPK8 2
## GO:0043560 PIK3R1/IGF1R 2
## GO:0140993 ATM/CHEK1/NCOA3/TGM2 4
## GO:0004707 MAPK8/MAPK1 2
## GO:0005068 PIK3R1/GAB2 2
## ID Description GeneRatio
## GO:0030099 GO:0030099 myeloid cell differentiation 9/26
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/26
## GO:0104004 GO:0104004 cellular response to environmental stimulus 8/26
## GO:0051402 GO:0051402 neuron apoptotic process 7/26
## GO:0042770 GO:0042770 signal transduction in response to DNA damage 6/26
## GO:0071496 GO:0071496 cellular response to external stimulus 7/26
## BgRatio pvalue p.adjust qvalue
## GO:0030099 439/18888 4.013892e-09 5.458224e-06 2.662727e-06
## GO:0071214 334/18888 1.040984e-08 5.458224e-06 2.662727e-06
## GO:0104004 334/18888 1.040984e-08 5.458224e-06 2.662727e-06
## GO:0051402 292/18888 1.004486e-07 3.950139e-05 1.927026e-05
## GO:0042770 188/18888 1.751351e-07 5.509752e-05 2.687864e-05
## GO:0071496 335/18888 2.552859e-07 6.692746e-05 3.264973e-05
## geneID Count
## GO:0030099 ETS1/MYH9/FOXO3/CASP8/PIK3R1/STAT5A/GAB2/G6PD/FASN 9
## GO:0071214 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0104004 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0051402 XIAP/BID/FOXO3/ATM/CASP8/CCND1/G6PD 7
## GO:0042770 BID/CDKN1A/FOXO3/ATM/CCND1/CHEK1 6
## GO:0071496 MAPK8/CDKN1A/FOXO3/CASP8/CHEK1/IGF1R/MAPK1 7
## ID
## GO:0005826 GO:0005826
## GO:0070938 GO:0070938
## GO:0061695 GO:0061695
## GO:1902911 GO:1902911
## GO:0000307 GO:0000307
## GO:0070557 GO:0070557
## Description
## GO:0005826 actomyosin contractile ring
## GO:0070938 contractile ring
## GO:0061695 transferase complex, transferring phosphorus-containing groups
## GO:1902911 protein kinase complex
## GO:0000307 cyclin-dependent protein kinase holoenzyme complex
## GO:0070557 PCNA-p21 complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005826 2/26 4/19894 9.838827e-06 0.001180659 0.0006524696
## GO:0070938 2/26 10/19894 7.343589e-05 0.004406154 0.0024349797
## GO:0061695 4/26 308/19894 6.436502e-04 0.025746006 0.0142280561
## GO:1902911 3/26 150/19894 9.618296e-04 0.028854888 0.0159461221
## GO:0000307 2/26 56/19894 2.421991e-03 0.032954906 0.0182119217
## GO:0070557 1/26 2/19894 2.612211e-03 0.032954906 0.0182119217
## geneID Count
## GO:0005826 MYH9/ANLN 2
## GO:0070938 MYH9/ANLN 2
## GO:0061695 CDKN1A/CCND1/PIK3R1/IGF1R 4
## GO:1902911 CDKN1A/CCND1/IGF1R 3
## GO:0000307 CDKN1A/CCND1 2
## GO:0070557 CDKN1A 1
## ID Description GeneRatio
## GO:0019903 GO:0019903 protein phosphatase binding 5/25
## GO:0019902 GO:0019902 phosphatase binding 5/25
## GO:0001221 GO:0001221 transcription coregulator binding 4/25
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 6/25
## GO:0001222 GO:0001222 transcription corepressor binding 3/25
## GO:0030235 GO:0030235 nitric-oxide synthase regulator activity 2/25
## BgRatio pvalue p.adjust qvalue
## GO:0019903 142/18522 1.158813e-06 0.0002398744 9.026546e-05
## GO:0019902 189/18522 4.722704e-06 0.0004887999 1.839369e-04
## GO:0001221 114/18522 1.558218e-05 0.0010751701 4.045898e-04
## GO:0140297 478/18522 3.340010e-05 0.0012619408 4.748722e-04
## GO:0001222 47/18522 3.386691e-05 0.0012619408 4.748722e-04
## GO:0030235 7/18522 3.657799e-05 0.0012619408 4.748722e-04
## geneID Count
## GO:0019903 MET/BCL2/MAPK8/PTK2/CTNNB1 5
## GO:0019902 MET/BCL2/MAPK8/PTK2/CTNNB1 5
## GO:0001221 ESR1/ETS1/FOXO3/CTNNB1 4
## GO:0140297 ESR1/BCL2/VHL/ETS1/STAT5A/CTNNB1 6
## GO:0001222 ESR1/ETS1/CTNNB1 3
## GO:0030235 ESR1/AKT1 2
## ID Description
## GO:0048660 GO:0048660 regulation of smooth muscle cell proliferation
## GO:0010634 GO:0010634 positive regulation of epithelial cell migration
## GO:0072331 GO:0072331 signal transduction by p53 class mediator
## GO:0048659 GO:0048659 smooth muscle cell proliferation
## GO:0010632 GO:0010632 regulation of epithelial cell migration
## GO:0048732 GO:0048732 gland development
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0048660 7/25 174/18888 2.085090e-09 1.292825e-06 4.589639e-07
## GO:0010634 7/25 177/18888 2.349149e-09 1.292825e-06 4.589639e-07
## GO:0072331 7/25 177/18888 2.349149e-09 1.292825e-06 4.589639e-07
## GO:0048659 7/25 178/18888 2.443261e-09 1.292825e-06 4.589639e-07
## GO:0010632 8/25 298/18888 2.994994e-09 1.292825e-06 4.589639e-07
## GO:0048732 9/25 449/18888 3.261963e-09 1.292825e-06 4.589639e-07
## geneID Count
## GO:0048660 NOTCH3/AKT1/IGF1R/PTEN/CDKN1A/ITGA2/CTNNB1 7
## GO:0010634 MET/AKT1/MTOR/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0072331 BCL2/AKT1/MTOR/ATM/CDKN1A/FOXO3/CHEK1 7
## GO:0048659 NOTCH3/AKT1/IGF1R/PTEN/CDKN1A/ITGA2/CTNNB1 7
## GO:0010632 MET/AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 8
## GO:0048732 ESR1/MET/BCL2/CCND1/AKT1/ATM/STAT5A/ITGA2/CTNNB1 9
## ID Description
## GO:0017053 GO:0017053 transcription repressor complex
## GO:0005741 GO:0005741 mitochondrial outer membrane
## GO:0005925 GO:0005925 focal adhesion
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0030055 GO:0030055 cell-substrate junction
## GO:0031968 GO:0031968 organelle outer membrane
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0017053 3/25 77/19894 0.0001205973 0.005126383 0.002807479
## GO:0005741 4/25 219/19894 0.0001507289 0.005126383 0.002807479
## GO:0005925 5/25 421/19894 0.0001552282 0.005126383 0.002807479
## GO:0090571 2/25 15/19894 0.0001576036 0.005126383 0.002807479
## GO:0030055 5/25 431/19894 0.0001731886 0.005126383 0.002807479
## GO:0031968 4/25 248/19894 0.0002426479 0.005289851 0.002897003
## geneID Count
## GO:0017053 CCND1/FOXO3/CTNNB1 3
## GO:0005741 BCL2/KRAS/MTOR/FOXO3 4
## GO:0005925 KRAS/HSPA1A/PTK2/ITGA2/CTNNB1 5
## GO:0090571 FOXO3/CTNNB1 2
## GO:0030055 KRAS/HSPA1A/PTK2/ITGA2/CTNNB1 5
## GO:0031968 BCL2/KRAS/MTOR/FOXO3 4
## ID Description GeneRatio
## GO:0043559 GO:0043559 insulin binding 2/28
## GO:0120283 GO:0120283 protein serine/threonine kinase binding 2/28
## GO:0031625 GO:0031625 ubiquitin protein ligase binding 5/28
## GO:0044389 GO:0044389 ubiquitin-like protein ligase binding 5/28
## GO:0043560 GO:0043560 insulin receptor substrate binding 2/28
## GO:0030971 GO:0030971 receptor tyrosine kinase binding 3/28
## BgRatio pvalue p.adjust qvalue
## GO:0043559 5/18522 2.197605e-05 0.004285329 0.001966278
## GO:0120283 7/18522 4.606338e-05 0.004491180 0.002060730
## GO:0031625 305/18522 8.437280e-05 0.005465883 0.002507962
## GO:0044389 324/18522 1.121207e-04 0.005465883 0.002507962
## GO:0043560 13/18522 1.701346e-04 0.005762971 0.002644278
## GO:0030971 81/18522 2.439332e-04 0.005762971 0.002644278
## geneID Count
## GO:0043559 PIK3R1/IGF1R 2
## GO:0120283 XIAP/MAPK8 2
## GO:0031625 BID/CDKN1A/CASP8/TUBA1B/SQSTM1 5
## GO:0044389 BID/CDKN1A/CASP8/TUBA1B/SQSTM1 5
## GO:0043560 PIK3R1/IGF1R 2
## GO:0030971 PIK3R1/GAB2/SQSTM1 3
## ID Description GeneRatio
## GO:0030099 GO:0030099 myeloid cell differentiation 9/28
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/28
## GO:0104004 GO:0104004 cellular response to environmental stimulus 8/28
## GO:0051402 GO:0051402 neuron apoptotic process 7/28
## GO:0042770 GO:0042770 signal transduction in response to DNA damage 6/28
## GO:0071496 GO:0071496 cellular response to external stimulus 7/28
## BgRatio pvalue p.adjust qvalue
## GO:0030099 439/18888 8.513830e-09 1.072325e-05 5.333796e-06
## GO:0071214 334/18888 2.008100e-08 1.072325e-05 5.333796e-06
## GO:0104004 334/18888 2.008100e-08 1.072325e-05 5.333796e-06
## GO:0051402 292/18888 1.760785e-07 7.051944e-05 3.507669e-05
## GO:0042770 188/18888 2.818815e-07 9.031482e-05 4.492300e-05
## GO:0071496 335/18888 4.457061e-07 1.190035e-04 5.919289e-05
## geneID Count
## GO:0030099 ETS1/MYH9/FOXO3/CASP8/PIK3R1/STAT5A/GAB2/G6PD/FASN 9
## GO:0071214 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0104004 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0051402 XIAP/BID/FOXO3/ATM/CASP8/CCND1/G6PD 7
## GO:0042770 BID/CDKN1A/FOXO3/ATM/CCND1/CHEK1 6
## GO:0071496 MAPK8/CDKN1A/FOXO3/CASP8/CHEK1/IGF1R/MAPK1 7
## ID
## GO:0005826 GO:0005826
## GO:0070938 GO:0070938
## GO:0061695 GO:0061695
## GO:1902911 GO:1902911
## GO:0000307 GO:0000307
## GO:0070557 GO:0070557
## Description
## GO:0005826 actomyosin contractile ring
## GO:0070938 contractile ring
## GO:0061695 transferase complex, transferring phosphorus-containing groups
## GO:1902911 protein kinase complex
## GO:0000307 cyclin-dependent protein kinase holoenzyme complex
## GO:0070557 PCNA-p21 complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005826 2/28 4/19894 1.144178e-05 0.001601849 0.0009394301
## GO:0070938 2/28 10/19894 8.536580e-05 0.005975606 0.0035044906
## GO:0061695 4/28 308/19894 8.603303e-04 0.040148747 0.0235458816
## GO:1902911 3/28 150/19894 1.198614e-03 0.041951489 0.0246031289
## GO:0000307 2/28 56/19894 2.806822e-03 0.043605516 0.0255731596
## GO:0070557 1/28 2/19894 2.813009e-03 0.043605516 0.0255731596
## geneID Count
## GO:0005826 MYH9/ANLN 2
## GO:0070938 MYH9/ANLN 2
## GO:0061695 CDKN1A/CCND1/PIK3R1/IGF1R 4
## GO:1902911 CDKN1A/CCND1/IGF1R 3
## GO:0000307 CDKN1A/CCND1 2
## GO:0070557 CDKN1A 1
## ID Description GeneRatio
## GO:0140313 GO:0140313 molecular sequestering activity 6/52
## GO:0019903 GO:0019903 protein phosphatase binding 8/52
## GO:0001221 GO:0001221 transcription coregulator binding 7/52
## GO:0019902 GO:0019902 phosphatase binding 8/52
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 11/52
## GO:0031625 GO:0031625 ubiquitin protein ligase binding 9/52
## BgRatio pvalue p.adjust qvalue
## GO:0140313 49/18522 4.635728e-09 9.335950e-07 4.228370e-07
## GO:0019903 142/18522 5.540623e-09 9.335950e-07 4.228370e-07
## GO:0001221 114/18522 2.956987e-08 3.321682e-06 1.504432e-06
## GO:0019902 189/18522 5.195320e-08 4.377057e-06 1.982425e-06
## GO:0140297 478/18522 7.007675e-08 4.723173e-06 2.139185e-06
## GO:0031625 305/18522 1.564085e-07 8.784942e-06 3.978812e-06
## geneID Count
## GO:0140313 YWHAZ/CDKN1A/CAV1/STAT3/SQSTM1/LCN2 6
## GO:0019903 MET/BCL2/CDKN1B/MAPK8/PTK2/EGFR/STAT3/CTNNB1 8
## GO:0001221 ESR1/MYC/EZH2/ETS1/FOXO3/CTNNB1/GATA3 7
## GO:0019902 MET/BCL2/CDKN1B/MAPK8/PTK2/EGFR/STAT3/CTNNB1 8
## GO:0140297 ESR1/BCL2/MYC/JUN/ETS1/ARID1A/YWHAZ/NCOA3/STAT3/CTNNB1/GATA3 11
## GO:0031625 BCL2/CDKN1B/JUN/BID/YWHAZ/CDKN1A/EGFR/SQSTM1/CTNNB1 9
## ID
## GO:0032355 GO:0032355
## GO:0048872 GO:0048872
## GO:1902893 GO:1902893
## GO:0061614 GO:0061614
## GO:0044772 GO:0044772
## GO:0043491 GO:0043491
## Description
## GO:0032355 response to estradiol
## GO:0048872 homeostasis of number of cells
## GO:1902893 regulation of miRNA transcription
## GO:0061614 miRNA transcription
## GO:0044772 mitotic cell cycle phase transition
## GO:0043491 phosphatidylinositol 3-kinase/protein kinase B signal transduction
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0032355 12/52 115/18888 2.424244e-16 7.435156e-13 3.299524e-13
## GO:0048872 15/52 322/18888 5.472674e-15 8.392346e-12 3.724299e-12
## GO:1902893 9/52 75/18888 4.794693e-13 4.161603e-10 1.846808e-10
## GO:0061614 9/52 76/18888 5.427588e-13 4.161603e-10 1.846808e-10
## GO:0044772 15/52 451/18888 7.411126e-13 4.545985e-10 2.017386e-10
## GO:0043491 13/52 299/18888 1.104312e-12 5.644877e-10 2.505046e-10
## geneID
## GO:0032355 ESR1/ERRFI1/IGF1R/CDKN1B/EZH2/NCOA3/EGFR/CASP3/STAT3/IGFBP2/ITGA2/CTNNB1
## GO:0048872 BAP1/G6PD/BCL2/KRAS/AKT1/BCL2L11/EZH2/XIAP/ETS1/FOXO3/AXL/CASP3/ANXA1/STAT3/GATA3
## GO:1902893 ESR1/NOTCH3/MYC/JUN/ETS1/FOXO3/EGFR/STAT3/GATA3
## GO:0061614 ESR1/NOTCH3/MYC/JUN/ETS1/FOXO3/EGFR/STAT3/GATA3
## GO:0044772 BCL2/CCND1/AKT1/PTEN/CDKN1B/MYC/EZH2/ARID1A/BID/CHEK1/CDKN1A/EGFR/FOXM1/CCNE2/RAD50
## GO:0043491 ERRFI1/AKT1/IGF1R/PTEN/IRS1/FN1/AXL/PTK2/EGFR/STAT3/RET/GAB2/GATA3
## Count
## GO:0032355 12
## GO:0048872 15
## GO:1902893 9
## GO:0061614 9
## GO:0044772 15
## GO:0043491 13
## ID Description
## GO:0005925 GO:0005925 focal adhesion
## GO:0030055 GO:0030055 cell-substrate junction
## GO:0070435 GO:0070435 Shc-EGFR complex
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0005899 GO:0005899 insulin receptor complex
## GO:1902911 GO:1902911 protein kinase complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005925 9/52 421/19894 1.284721e-06 0.0001574755 9.601165e-05
## GO:0030055 9/52 431/19894 1.559164e-06 0.0001574755 9.601165e-05
## GO:0070435 2/52 2/19894 6.701178e-06 0.0003785405 2.307933e-04
## GO:0090571 3/52 15/19894 7.495851e-06 0.0003785405 2.307933e-04
## GO:0005899 2/52 4/19894 4.007244e-05 0.0014074824 8.581315e-04
## GO:1902911 5/52 150/19894 4.452637e-05 0.0014074824 8.581315e-04
## geneID Count
## GO:0005925 KRAS/SHC1/YWHAZ/PTK2/EGFR/CAV1/ANXA1/ITGA2/CTNNB1 9
## GO:0030055 KRAS/SHC1/YWHAZ/PTK2/EGFR/CAV1/ANXA1/ITGA2/CTNNB1 9
## GO:0070435 SHC1/EGFR 2
## GO:0090571 MYC/FOXO3/CTNNB1 3
## GO:0005899 IGF1R/IRS1 2
## GO:1902911 CCND1/IGF1R/IRS1/CDKN1A/CCNE2 5
## ID
## GO:0043559 GO:0043559
## GO:0120283 GO:0120283
## GO:0043560 GO:0043560
## GO:0004707 GO:0004707
## GO:0005068 GO:0005068
## GO:0070064 GO:0070064
## Description
## GO:0043559 insulin binding
## GO:0120283 protein serine/threonine kinase binding
## GO:0043560 insulin receptor substrate binding
## GO:0004707 MAP kinase activity
## GO:0005068 transmembrane receptor protein tyrosine kinase adaptor activity
## GO:0070064 proline-rich region binding
## GeneRatio BgRatio pvalue p.adjust qvalue geneID
## GO:0043559 2/24 5/18522 1.605294e-05 0.002809265 0.001165950 PIK3R1/IGF1R
## GO:0120283 2/24 7/18522 3.365781e-05 0.002945059 0.001222310 XIAP/MAPK8
## GO:0043560 2/24 13/18522 1.244222e-04 0.006307446 0.002617827 PIK3R1/IGF1R
## GO:0004707 2/24 16/18522 1.909646e-04 0.006307446 0.002617827 MAPK8/MAPK1
## GO:0005068 2/24 17/18522 2.162553e-04 0.006307446 0.002617827 PIK3R1/GAB2
## GO:0070064 2/24 17/18522 2.162553e-04 0.006307446 0.002617827 CCND1/YAP1
## Count
## GO:0043559 2
## GO:0120283 2
## GO:0043560 2
## GO:0004707 2
## GO:0005068 2
## GO:0070064 2
## ID Description
## GO:0071214 GO:0071214 cellular response to abiotic stimulus
## GO:0104004 GO:0104004 cellular response to environmental stimulus
## GO:0030099 GO:0030099 myeloid cell differentiation
## GO:0042770 GO:0042770 signal transduction in response to DNA damage
## GO:0071496 GO:0071496 cellular response to external stimulus
## GO:1901990 GO:1901990 regulation of mitotic cell cycle phase transition
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0071214 8/24 334/18888 5.054206e-09 3.661773e-06 1.702470e-06
## GO:0104004 8/24 334/18888 5.054206e-09 3.661773e-06 1.702470e-06
## GO:0030099 8/24 439/18888 4.239931e-08 2.047887e-05 9.521249e-06
## GO:0042770 6/24 188/18888 1.040955e-07 3.770861e-05 1.753188e-05
## GO:0071496 7/24 335/18888 1.384829e-07 4.013234e-05 1.865875e-05
## GO:1901990 7/24 356/18888 2.092122e-07 5.052475e-05 2.349050e-05
## geneID Count
## GO:0071214 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0104004 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0030099 ETS1/MYH9/FOXO3/CASP8/PIK3R1/STAT5A/GAB2/FASN 8
## GO:0042770 BID/CDKN1A/FOXO3/ATM/CCND1/CHEK1 6
## GO:0071496 MAPK8/CDKN1A/FOXO3/CASP8/CHEK1/IGF1R/MAPK1 7
## GO:1901990 ARID1A/BID/CDKN1A/ATM/CCND1/CHEK1/ANLN 7
## ID
## GO:0005826 GO:0005826
## GO:0070938 GO:0070938
## GO:0061695 GO:0061695
## GO:1902911 GO:1902911
## GO:0000307 GO:0000307
## GO:0005741 GO:0005741
## Description
## GO:0005826 actomyosin contractile ring
## GO:0070938 contractile ring
## GO:0061695 transferase complex, transferring phosphorus-containing groups
## GO:1902911 protein kinase complex
## GO:0000307 cyclin-dependent protein kinase holoenzyme complex
## GO:0005741 mitochondrial outer membrane
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005826 2/24 4/19894 8.356555e-06 0.000977717 0.0005629679
## GO:0070938 2/24 10/19894 6.239748e-05 0.003650253 0.0021018098
## GO:0061695 4/24 308/19894 4.687667e-04 0.018281901 0.0105266907
## GO:1902911 3/24 150/19894 7.570559e-04 0.022143885 0.0127504154
## GO:0000307 2/24 56/19894 2.064262e-03 0.026838757 0.0154537153
## GO:0005741 3/24 219/19894 2.245291e-03 0.026838757 0.0154537153
## geneID Count
## GO:0005826 MYH9/ANLN 2
## GO:0070938 MYH9/ANLN 2
## GO:0061695 CDKN1A/CCND1/PIK3R1/IGF1R 4
## GO:1902911 CDKN1A/CCND1/IGF1R 3
## GO:0000307 CDKN1A/CCND1 2
## GO:0005741 BID/FOXO3/CASP8 3
## ID Description GeneRatio
## GO:0106310 GO:0106310 protein serine kinase activity 5/25
## GO:0004707 GO:0004707 MAP kinase activity 2/25
## GO:0004674 GO:0004674 protein serine/threonine kinase activity 5/25
## GO:0070064 GO:0070064 proline-rich region binding 2/25
## GO:0042826 GO:0042826 histone deacetylase binding 3/25
## GO:0045296 GO:0045296 cadherin binding 4/25
## BgRatio pvalue p.adjust qvalue
## GO:0106310 363/18522 0.0001081824 0.01192286 0.004945963
## GO:0004707 16/18522 0.0002074657 0.01192286 0.004945963
## GO:0004674 427/18522 0.0002308630 0.01192286 0.004945963
## GO:0070064 17/18522 0.0002349333 0.01192286 0.004945963
## GO:0042826 128/18522 0.0006634074 0.01766587 0.007328335
## GO:0045296 333/18522 0.0009629296 0.01766587 0.007328335
## geneID Count
## GO:0106310 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004707 MAPK8/MAPK1 2
## GO:0004674 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0070064 CCND1/YAP1 2
## GO:0042826 HSPA1A/MAPK8/CCND1 3
## GO:0045296 HSPA1A/MYH9/ANLN/FASN 4
## ID Description GeneRatio BgRatio
## GO:0010631 GO:0010631 epithelial cell migration 9/25 375/18888
## GO:0090132 GO:0090132 epithelium migration 9/25 378/18888
## GO:0090130 GO:0090130 tissue migration 9/25 383/18888
## GO:0030099 GO:0030099 myeloid cell differentiation 9/25 439/18888
## GO:0062197 GO:0062197 cellular response to chemical stress 8/25 311/18888
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/25 334/18888
## pvalue p.adjust qvalue
## GO:0010631 6.722030e-10 5.415358e-07 2.272198e-07
## GO:0090132 7.210613e-10 5.415358e-07 2.272198e-07
## GO:0090130 8.094706e-10 5.415358e-07 2.272198e-07
## GO:0030099 2.679241e-09 1.344309e-06 5.640507e-07
## GO:0062197 4.187089e-09 1.680697e-06 7.051939e-07
## GO:0071214 7.318853e-09 2.016998e-06 8.463004e-07
## geneID Count
## GO:0010631 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090130 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0030099 HSPA1A/MTOR/MYH9/FOXO3/CASP8/ETS1/STAT5A/G6PD/FASN 9
## GO:0062197 HSPA1A/AKT1/MTOR/MAPK8/FOXO3/ATM/MAPK1/G6PD 8
## GO:0071214 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 7/25 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 7/25 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/25 4/19894
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 4/25 161/19894
## GO:0070938 GO:0070938 contractile ring 2/25 10/19894
## GO:0098562 GO:0098562 cytoplasmic side of membrane 4/25 199/19894
## pvalue p.adjust qvalue
## GO:0005925 6.252929e-07 4.757557e-05 2.696591e-05
## GO:0030055 7.319319e-07 4.757557e-05 2.696591e-05
## GO:0005826 9.082603e-06 3.935795e-04 2.230815e-04
## GO:0009898 4.578147e-05 1.487898e-03 8.433429e-04
## GO:0070938 6.780516e-05 1.762934e-03 9.992340e-04
## GO:0098562 1.042248e-04 2.258203e-03 1.279953e-03
## geneID Count
## GO:0005925 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0030055 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0005826 MYH9/ANLN 2
## GO:0009898 MYH9/PTEN/KRAS/G6PD 4
## GO:0070938 MYH9/ANLN 2
## GO:0098562 MYH9/PTEN/KRAS/G6PD 4
## ID Description GeneRatio
## GO:0019902 GO:0019902 phosphatase binding 5/28
## GO:0001221 GO:0001221 transcription coregulator binding 4/28
## GO:0030235 GO:0030235 nitric-oxide synthase regulator activity 2/28
## GO:0001222 GO:0001222 transcription corepressor binding 3/28
## GO:0019903 GO:0019903 protein phosphatase binding 4/28
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 6/28
## BgRatio pvalue p.adjust qvalue
## GO:0019902 189/18522 8.521722e-06 0.001704344 0.0007086485
## GO:0001221 114/18522 2.486433e-05 0.002217794 0.0009221356
## GO:0030235 7/18522 4.606338e-05 0.002217794 0.0009221356
## GO:0001222 47/18522 4.798130e-05 0.002217794 0.0009221356
## GO:0019903 142/18522 5.876068e-05 0.002217794 0.0009221356
## GO:0140297 478/18522 6.653383e-05 0.002217794 0.0009221356
## geneID Count
## GO:0019902 MET/BCL2/PTK2/MAPK1/CTNNB1 5
## GO:0001221 ESR1/FOXO3/ETS1/CTNNB1 4
## GO:0030235 ESR1/AKT1 2
## GO:0001222 ESR1/ETS1/CTNNB1 3
## GO:0019903 MET/BCL2/PTK2/CTNNB1 4
## GO:0140297 ESR1/BCL2/ETS1/STAT5A/YAP1/CTNNB1 6
## ID Description GeneRatio
## GO:0048732 GO:0048732 gland development 11/28
## GO:0001667 GO:0001667 ameboidal-type cell migration 10/28
## GO:0043523 GO:0043523 regulation of neuron apoptotic process 8/28
## GO:0033002 GO:0033002 muscle cell proliferation 8/28
## GO:0010631 GO:0010631 epithelial cell migration 9/28
## GO:0090132 GO:0090132 epithelium migration 9/28
## BgRatio pvalue p.adjust qvalue
## GO:0048732 449/18888 1.809829e-11 4.224140e-08 1.600270e-08
## GO:0001667 498/18888 1.271623e-09 8.646514e-07 3.275638e-07
## GO:0043523 244/18888 1.719699e-09 8.646514e-07 3.275638e-07
## GO:0033002 251/18888 2.149085e-09 8.646514e-07 3.275638e-07
## GO:0010631 375/18888 2.155959e-09 8.646514e-07 3.275638e-07
## GO:0090132 378/18888 2.311658e-09 8.646514e-07 3.275638e-07
## geneID Count
## GO:0048732 ESR1/MET/BCL2/CCND1/AKT1/ATM/STAT5A/MAPK1/ITGA2/CTNNB1/TGM2 11
## GO:0001667 MET/AKT1/MYH9/PTEN/PTK2/ETS1/STAT5A/FN1/ANLN/ITGA2 10
## GO:0043523 G6PD/BCL2/KRAS/CCND1/FOXO3/ATM/CASP8/CTNNB1 8
## GO:0033002 NOTCH3/AKT1/IGF1R/CDKN1A/PTEN/YAP1/ITGA2/CTNNB1 8
## GO:0010631 MET/AKT1/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 MET/AKT1/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 7/28 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 7/28 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/28 4/19894
## GO:0005938 GO:0005938 cell cortex 5/28 309/19894
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 4/28 161/19894
## GO:0070938 GO:0070938 contractile ring 2/28 10/19894
## pvalue p.adjust qvalue
## GO:0005925 1.457953e-06 0.0001448678 7.445221e-05
## GO:0030055 1.704328e-06 0.0001448678 7.445221e-05
## GO:0005826 1.144178e-05 0.0006483674 3.332167e-04
## GO:0005938 6.414545e-05 0.0024186976 1.243046e-03
## GO:0009898 7.271284e-05 0.0024186976 1.243046e-03
## GO:0070938 8.536580e-05 0.0024186976 1.243046e-03
## geneID Count
## GO:0005925 KRAS/MYH9/PTK2/MAPK1/ITGA2/CTNNB1/TGM2 7
## GO:0030055 KRAS/MYH9/PTK2/MAPK1/ITGA2/CTNNB1/TGM2 7
## GO:0005826 MYH9/ANLN 2
## GO:0005938 AKT1/MYH9/PTK2/ANLN/CTNNB1 5
## GO:0009898 G6PD/KRAS/MYH9/PTEN 4
## GO:0070938 MYH9/ANLN 2
## ID
## GO:0140313 GO:0140313
## GO:0019903 GO:0019903
## GO:0019887 GO:0019887
## GO:0016538 GO:0016538
## GO:0004714 GO:0004714
## GO:0030235 GO:0030235
## Description
## GO:0140313 molecular sequestering activity
## GO:0019903 protein phosphatase binding
## GO:0019887 protein kinase regulator activity
## GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity
## GO:0004714 transmembrane receptor protein tyrosine kinase activity
## GO:0030235 nitric-oxide synthase regulator activity
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0140313 6/53 49/18522 5.217115e-09 1.779036e-06 8.292468e-07
## GO:0019903 7/53 142/18522 1.540591e-07 2.590235e-05 1.207364e-05
## GO:0019887 8/53 232/18522 2.929329e-07 2.590235e-05 1.207364e-05
## GO:0016538 5/53 50/18522 3.038399e-07 2.590235e-05 1.207364e-05
## GO:0004714 5/53 60/18522 7.664643e-07 3.499023e-05 1.630969e-05
## GO:0030235 3/53 7/18522 7.680745e-07 3.499023e-05 1.630969e-05
## geneID Count
## GO:0140313 YWHAZ/CDKN1A/CAV1/STAT3/SQSTM1/LCN2 6
## GO:0019903 MET/BCL2/CDKN1B/MAPK8/PTK2/EGFR/STAT3 7
## GO:0019887 CCND1/AKT1/CDKN1B/CDKN1A/EGFR/CAV1/CASP3/CCNE2 8
## GO:0016538 CCND1/CDKN1B/CDKN1A/CASP3/CCNE2 5
## GO:0004714 MET/IGF1R/AXL/EGFR/RET 5
## GO:0030235 ESR1/AKT1/EGFR 3
## ID Description
## GO:0048872 GO:0048872 homeostasis of number of cells
## GO:0032355 GO:0032355 response to estradiol
## GO:0044772 GO:0044772 mitotic cell cycle phase transition
## GO:0000082 GO:0000082 G1/S transition of mitotic cell cycle
## GO:2000045 GO:2000045 regulation of G1/S transition of mitotic cell cycle
## GO:0044843 GO:0044843 cell cycle G1/S phase transition
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0048872 15/53 322/18888 7.516594e-15 2.210630e-11 1.020674e-11
## GO:0032355 11/53 115/18888 1.607967e-14 2.364516e-11 1.091725e-11
## GO:0044772 16/53 451/18888 5.662713e-14 4.627298e-11 2.136479e-11
## GO:0000082 13/53 234/18888 6.293503e-14 4.627298e-11 2.136479e-11
## GO:2000045 12/53 185/18888 1.023246e-13 6.018730e-11 2.778919e-11
## GO:0044843 13/53 262/18888 2.684370e-13 1.315789e-10 6.075154e-11
## geneID
## GO:0048872 BAP1/G6PD/BCL2/KRAS/AKT1/BCL2L11/EZH2/XIAP/ETS1/FOXO3/AXL/CASP3/ANXA1/STAT3/GATA3
## GO:0032355 ESR1/ERRFI1/IGF1R/CDKN1B/EZH2/NCOA3/EGFR/CASP3/STAT3/IGFBP2/ITGA2
## GO:0044772 BCL2/CCND1/AKT1/PTEN/CDKN1B/MYC/EZH2/ARID1A/BID/ATM/CHEK1/CDKN1A/EGFR/FOXM1/CCNE2/RAD50
## GO:0000082 BCL2/CCND1/AKT1/PTEN/CDKN1B/MYC/EZH2/ARID1A/BID/ATM/CDKN1A/EGFR/CCNE2
## GO:2000045 BCL2/CCND1/AKT1/PTEN/CDKN1B/EZH2/ARID1A/BID/ATM/CDKN1A/EGFR/CCNE2
## GO:0044843 BCL2/CCND1/AKT1/PTEN/CDKN1B/MYC/EZH2/ARID1A/BID/ATM/CDKN1A/EGFR/CCNE2
## Count
## GO:0048872 15
## GO:0032355 11
## GO:0044772 16
## GO:0000082 13
## GO:2000045 12
## GO:0044843 13
## ID Description GeneRatio BgRatio
## GO:0070435 GO:0070435 Shc-EGFR complex 2/53 2/19894
## GO:0005925 GO:0005925 focal adhesion 8/53 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 8/53 431/19894
## GO:0005899 GO:0005899 insulin receptor complex 2/53 4/19894
## GO:1902911 GO:1902911 protein kinase complex 5/53 150/19894
## GO:0005741 GO:0005741 mitochondrial outer membrane 5/53 219/19894
## pvalue p.adjust qvalue
## GO:0070435 6.963969e-06 0.001018184 0.0006623315
## GO:0005925 1.449096e-05 0.001018184 0.0006623315
## GO:0030055 1.716041e-05 0.001018184 0.0006623315
## GO:0005899 4.164111e-05 0.001739692 0.0011316746
## GO:1902911 4.886777e-05 0.001739692 0.0011316746
## GO:0005741 2.883549e-04 0.007860523 0.0051132908
## geneID Count
## GO:0070435 SHC1/EGFR 2
## GO:0005925 KRAS/SHC1/PTK2/YWHAZ/EGFR/CAV1/ANXA1/ITGA2 8
## GO:0030055 KRAS/SHC1/PTK2/YWHAZ/EGFR/CAV1/ANXA1/ITGA2 8
## GO:0005899 IGF1R/IRS1 2
## GO:1902911 CCND1/IGF1R/IRS1/CDKN1A/CCNE2 5
## GO:0005741 BCL2/KRAS/BCL2L11/BID/FOXO3 5
## ID
## GO:0140297 GO:0140297
## GO:0061629 GO:0061629
## GO:0001221 GO:0001221
## GO:0019903 GO:0019903
## GO:0019902 GO:0019902
## GO:0097718 GO:0097718
## Description
## GO:0140297 DNA-binding transcription factor binding
## GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding
## GO:0001221 transcription coregulator binding
## GO:0019903 protein phosphatase binding
## GO:0019902 phosphatase binding
## GO:0097718 disordered domain specific binding
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0140297 10/27 478/18522 6.791959e-10 1.324432e-07 6.291499e-08
## GO:0061629 7/27 343/18522 4.535843e-07 3.808236e-05 1.809041e-05
## GO:0001221 5/27 114/18522 5.858824e-07 3.808236e-05 1.809041e-05
## GO:0019903 5/27 142/18522 1.739208e-06 8.478639e-05 4.027639e-05
## GO:0019902 5/27 189/18522 7.058179e-06 2.752690e-04 1.307621e-04
## GO:0097718 3/27 32/18522 1.332054e-05 4.329175e-04 2.056504e-04
## geneID Count
## GO:0140297 ESR1/BCL2/RB1/ETS1/ARID1A/YWHAZ/NCOA3/GATA3/CTNNB1/VHL 10
## GO:0061629 ESR1/RB1/ETS1/ARID1A/NCOA3/GATA3/CTNNB1 7
## GO:0001221 ESR1/ETS1/FOXO3/GATA3/CTNNB1 5
## GO:0019903 MET/BCL2/MAPK8/CDH2/CTNNB1 5
## GO:0019902 MET/BCL2/MAPK8/CDH2/CTNNB1 5
## GO:0097718 RB1/NCOA3/CTNNB1 3
## ID Description GeneRatio
## GO:0051402 GO:0051402 neuron apoptotic process 10/27
## GO:0048872 GO:0048872 homeostasis of number of cells 10/27
## GO:1904019 GO:1904019 epithelial cell apoptotic process 7/27
## GO:0030099 GO:0030099 myeloid cell differentiation 9/27
## GO:1904035 GO:1904035 regulation of epithelial cell apoptotic process 6/27
## GO:0043523 GO:0043523 regulation of neuron apoptotic process 7/27
## BgRatio pvalue p.adjust qvalue
## GO:0051402 292/18888 4.472956e-12 9.880759e-09 4.016243e-09
## GO:0048872 322/18888 1.177305e-11 1.300333e-08 5.285479e-09
## GO:1904019 147/18888 1.167740e-09 8.598459e-07 3.495025e-07
## GO:0030099 439/18888 5.897771e-09 3.257044e-06 1.323894e-06
## GO:1904035 115/18888 1.191071e-08 5.262152e-06 2.138913e-06
## GO:0043523 244/18888 3.924792e-08 1.444978e-05 5.873417e-06
## geneID Count
## GO:0051402 G6PD/BCL2/KRAS/CCND1/RB1/XIAP/BID/FOXO3/GATA3/CTNNB1 10
## GO:0048872 G6PD/BCL2/KRAS/AKT1/RB1/XIAP/ETS1/FOXO3/CDH2/GATA3 10
## GO:1904019 ESR1/BCL2/IGF1R/RB1/BID/FOXO3/GATA3 7
## GO:0030099 G6PD/RB1/ETS1/FOXO3/GAB2/GATA3/CTNNB1/RBM15/FASN 9
## GO:1904035 ESR1/BCL2/IGF1R/RB1/FOXO3/GATA3 6
## GO:0043523 G6PD/BCL2/KRAS/CCND1/FOXO3/GATA3/CTNNB1 7
## ID Description
## GO:0005916 GO:0005916 fascia adherens
## GO:0017053 GO:0017053 transcription repressor complex
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0005741 GO:0005741 mitochondrial outer membrane
## GO:0031968 GO:0031968 organelle outer membrane
## GO:0019867 GO:0019867 outer membrane
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005916 2/27 9/19894 6.348477e-05 0.006782767 0.002650363
## GO:0017053 3/27 77/19894 1.525165e-04 0.006782767 0.002650363
## GO:0090571 2/27 15/19894 1.842356e-04 0.006782767 0.002650363
## GO:0005741 4/27 219/19894 2.055384e-04 0.006782767 0.002650363
## GO:0031968 4/27 248/19894 3.301165e-04 0.007487277 0.002925650
## GO:0019867 4/27 250/19894 3.403308e-04 0.007487277 0.002925650
## geneID Count
## GO:0005916 CDH2/CTNNB1 2
## GO:0017053 CCND1/FOXO3/CTNNB1 3
## GO:0090571 FOXO3/CTNNB1 2
## GO:0005741 BCL2/KRAS/BID/FOXO3 4
## GO:0031968 BCL2/KRAS/BID/FOXO3 4
## GO:0019867 BCL2/KRAS/BID/FOXO3 4
## ID Description GeneRatio
## GO:0005178 GO:0005178 integrin binding 4/23
## GO:0106310 GO:0106310 protein serine kinase activity 5/23
## GO:0004674 GO:0004674 protein serine/threonine kinase activity 5/23
## GO:0004707 GO:0004707 MAP kinase activity 2/23
## GO:0070064 GO:0070064 proline-rich region binding 2/23
## GO:0042826 GO:0042826 histone deacetylase binding 3/23
## BgRatio pvalue p.adjust qvalue
## GO:0005178 157/18522 3.880147e-05 0.006191422 0.002457948
## GO:0106310 363/18522 7.075911e-05 0.006191422 0.002457948
## GO:0004674 427/18522 1.518718e-04 0.006941937 0.002755897
## GO:0004707 16/18522 1.751391e-04 0.006941937 0.002755897
## GO:0070064 17/18522 1.983411e-04 0.006941937 0.002755897
## GO:0042826 128/18522 5.160029e-04 0.015050083 0.005974770
## geneID Count
## GO:0005178 MYH9/PTK2/ITGA2/FN1 4
## GO:0106310 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004674 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004707 MAPK8/MAPK1 2
## GO:0070064 CCND1/YAP1 2
## GO:0042826 HSPA1A/MAPK8/CCND1 3
## ID Description GeneRatio
## GO:0001667 GO:0001667 ameboidal-type cell migration 10/23
## GO:0010631 GO:0010631 epithelial cell migration 9/23
## GO:0090132 GO:0090132 epithelium migration 9/23
## GO:0090130 GO:0090130 tissue migration 9/23
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/23
## GO:0104004 GO:0104004 cellular response to environmental stimulus 8/23
## BgRatio pvalue p.adjust qvalue
## GO:0001667 498/18888 1.248213e-10 1.608487e-07 6.288568e-08
## GO:0010631 375/18888 2.784961e-10 1.608487e-07 6.288568e-08
## GO:0090132 378/18888 2.988249e-10 1.608487e-07 6.288568e-08
## GO:0090130 383/18888 3.356258e-10 1.608487e-07 6.288568e-08
## GO:0071214 334/18888 3.421872e-09 1.093288e-06 4.274339e-07
## GO:0104004 334/18888 3.421872e-09 1.093288e-06 4.274339e-07
## geneID Count
## GO:0001667 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2/FN1 10
## GO:0010631 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090130 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0071214 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## GO:0104004 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 6/23 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 6/23 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/23 4/19894
## GO:0070938 GO:0070938 contractile ring 2/23 10/19894
## GO:0005741 GO:0005741 mitochondrial outer membrane 4/23 219/19894
## GO:0031968 GO:0031968 organelle outer membrane 4/23 248/19894
## pvalue p.adjust qvalue
## GO:0005925 6.447048e-06 0.0003319632 0.0001827814
## GO:0030055 7.373490e-06 0.0003319632 0.0001827814
## GO:0005826 7.660689e-06 0.0003319632 0.0001827814
## GO:0070938 5.721303e-05 0.0018594235 0.0010238121
## GO:0005741 1.073470e-04 0.0027910215 0.0015367568
## GO:0031968 1.732117e-04 0.0033173797 0.0018265734
## geneID Count
## GO:0005925 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2 6
## GO:0030055 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2 6
## GO:0005826 MYH9/ANLN 2
## GO:0070938 MYH9/ANLN 2
## GO:0005741 MTOR/FOXO3/CASP8/KRAS 4
## GO:0031968 MTOR/FOXO3/CASP8/KRAS 4
## ID Description
## GO:0106310 GO:0106310 protein serine kinase activity
## GO:0004674 GO:0004674 protein serine/threonine kinase activity
## GO:0030291 GO:0030291 protein serine/threonine kinase inhibitor activity
## GO:0003925 GO:0003925 G protein activity
## GO:0004860 GO:0004860 protein kinase inhibitor activity
## GO:0001156 GO:0001156 TFIIIC-class transcription factor complex binding
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0106310 4/15 363/18522 0.0001669197 0.01507202 0.004898006
## GO:0004674 4/15 427/18522 0.0003106963 0.01507202 0.004898006
## GO:0030291 2/15 37/18522 0.0004010778 0.01507202 0.004898006
## GO:0003925 2/15 45/18522 0.0005939699 0.01507202 0.004898006
## GO:0004860 2/15 73/18522 0.0015562116 0.01507202 0.004898006
## GO:0001156 1/15 2/18522 0.0016190833 0.01507202 0.004898006
## geneID Count
## GO:0106310 AKT1/MTOR/MAPK8/ATM 4
## GO:0004674 AKT1/MTOR/MAPK8/ATM 4
## GO:0030291 AKT1/CDKN1A 2
## GO:0003925 KRAS/NRAS 2
## GO:0004860 AKT1/CDKN1A 2
## GO:0001156 MTOR 1
## ID Description
## GO:0010632 GO:0010632 regulation of epithelial cell migration
## GO:0010634 GO:0010634 positive regulation of epithelial cell migration
## GO:0010631 GO:0010631 epithelial cell migration
## GO:0090132 GO:0090132 epithelium migration
## GO:0090130 GO:0090130 tissue migration
## GO:0009408 GO:0009408 response to heat
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0010632 7/15 298/18888 1.309993e-09 2.154939e-06 7.460068e-07
## GO:0010634 6/15 177/18888 2.902927e-09 2.387657e-06 8.265701e-07
## GO:0010631 7/15 375/18888 6.453146e-09 2.456663e-06 8.504588e-07
## GO:0090132 7/15 378/18888 6.818674e-09 2.456663e-06 8.504588e-07
## GO:0090130 7/15 383/18888 7.467060e-09 2.456663e-06 8.504588e-07
## GO:0009408 5/15 104/18888 1.320196e-08 3.619538e-06 1.253028e-06
## geneID Count
## GO:0010632 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0010634 AKT1/MTOR/PTK2/ETS1/STAT5A/ITGA2 6
## GO:0010631 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0090132 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0090130 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0009408 HSPA1A/AKT1/MTOR/ATM/CDKN1A 5
## ID Description GeneRatio BgRatio
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 3/15 161/19894
## GO:0005925 GO:0005925 focal adhesion 4/15 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 4/15 431/19894
## GO:0098562 GO:0098562 cytoplasmic side of membrane 3/15 199/19894
## GO:0070557 GO:0070557 PCNA-p21 complex 1/15 2/19894
## GO:0034666 GO:0034666 integrin alpha2-beta1 complex 1/15 3/19894
## pvalue p.adjust qvalue geneID Count
## GO:0009898 0.0002203815 0.006051504 0.003701489 PTEN/KRAS/G6PD 3
## GO:0005925 0.0002242685 0.006051504 0.003701489 HSPA1A/KRAS/PTK2/ITGA2 4
## GO:0030055 0.0002453312 0.006051504 0.003701489 HSPA1A/KRAS/PTK2/ITGA2 4
## GO:0098562 0.0004105210 0.007594638 0.004645369 PTEN/KRAS/G6PD 3
## GO:0070557 0.0015074617 0.022310434 0.013646496 CDKN1A 1
## GO:0034666 0.0022603970 0.027878229 0.017052118 ITGA2 1
## ID
## GO:0120283 GO:0120283
## GO:0140297 GO:0140297
## GO:0016747 GO:0016747
## GO:0030374 GO:0030374
## GO:0003713 GO:0003713
## GO:0061629 GO:0061629
## Description
## GO:0120283 protein serine/threonine kinase binding
## GO:0140297 DNA-binding transcription factor binding
## GO:0016747 acyltransferase activity, transferring groups other than amino-acyl groups
## GO:0030374 nuclear receptor coactivator activity
## GO:0003713 transcription coactivator activity
## GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0120283 2/11 7/18522 6.722891e-06 0.0006991806 0.0002689156
## GO:0140297 4/11 478/18522 1.251440e-04 0.0065074889 0.0025028804
## GO:0016747 3/11 226/18522 2.751516e-04 0.0072644370 0.0027940142
## GO:0030374 2/11 55/18522 4.680676e-04 0.0072644370 0.0027940142
## GO:0003713 3/11 271/18522 4.685463e-04 0.0072644370 0.0027940142
## GO:0061629 3/11 343/18522 9.301306e-04 0.0072644370 0.0027940142
## geneID Count
## GO:0120283 XIAP/MAPK8 2
## GO:0140297 ETS1/ARID1A/STAT5A/NCOA3 4
## GO:0016747 NCOA3/TGM2/FASN 3
## GO:0030374 ETS1/NCOA3 2
## GO:0003713 ETS1/ARID1A/NCOA3 3
## GO:0061629 ETS1/ARID1A/NCOA3 3
## ID Description
## GO:0030099 GO:0030099 myeloid cell differentiation
## GO:2000045 GO:2000045 regulation of G1/S transition of mitotic cell cycle
## GO:0071353 GO:0071353 cellular response to interleukin-4
## GO:0070670 GO:0070670 response to interleukin-4
## GO:1902806 GO:1902806 regulation of cell cycle G1/S phase transition
## GO:0030851 GO:0030851 granulocyte differentiation
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0030099 4/11 439/18888 0.0000834442 0.02183444 0.01068352
## GO:2000045 3/11 185/18888 0.0001439698 0.02183444 0.01068352
## GO:0071353 2/11 34/18888 0.0001712343 0.02183444 0.01068352
## GO:0070670 2/11 37/18888 0.0002030898 0.02183444 0.01068352
## GO:1902806 3/11 211/18888 0.0002122639 0.02183444 0.01068352
## GO:0030851 2/11 41/18888 0.0002497329 0.02183444 0.01068352
## geneID Count
## GO:0030099 ETS1/STAT5A/GAB2/FASN 4
## GO:2000045 ARID1A/BID/CDKN1A 3
## GO:0071353 STAT5A/FASN 2
## GO:0070670 STAT5A/FASN 2
## GO:1902806 ARID1A/BID/CDKN1A 3
## GO:0030851 STAT5A/FASN 2
## ID Description GeneRatio BgRatio pvalue
## GO:0070557 GO:0070557 PCNA-p21 complex 1/11 2/19894 0.001105583
## GO:0042587 GO:0042587 glycogen granule 1/11 6/19894 0.003313416
## GO:0097441 GO:0097441 basal dendrite 1/11 6/19894 0.003313416
## GO:0140092 GO:0140092 bBAF complex 1/11 10/19894 0.005516813
## GO:0035060 GO:0035060 brahma complex 1/11 14/19894 0.007715780
## GO:0071564 GO:0071564 npBAF complex 1/11 14/19894 0.007715780
## p.adjust qvalue geneID Count
## GO:0070557 0.02871628 0.01976424 CDKN1A 1
## GO:0042587 0.02871628 0.01976424 FASN 1
## GO:0097441 0.02871628 0.01976424 MAPK8 1
## GO:0140092 0.03273625 0.02253102 ARID1A 1
## GO:0035060 0.03273625 0.02253102 ARID1A 1
## GO:0071564 0.03273625 0.02253102 ARID1A 1
## ID
## GO:0032143 GO:0032143
## GO:0019902 GO:0019902
## GO:0016538 GO:0016538
## GO:0001221 GO:0001221
## GO:0140297 GO:0140297
## GO:0005123 GO:0005123
## Description
## GO:0032143 single thymine insertion binding
## GO:0019902 phosphatase binding
## GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity
## GO:0001221 transcription coregulator binding
## GO:0140297 DNA-binding transcription factor binding
## GO:0005123 death receptor binding
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0032143 2/45 2/18522 5.771821e-06 0.0005925934 0.0002755751
## GO:0019902 6/45 189/18522 6.100384e-06 0.0005925934 0.0002755751
## GO:0016538 4/45 50/18522 6.451683e-06 0.0005925934 0.0002755751
## GO:0001221 5/45 114/18522 8.117718e-06 0.0005925934 0.0002755751
## GO:0140297 8/45 478/18522 1.727807e-05 0.0006310362 0.0002934523
## GO:0005123 3/45 21/18522 1.728589e-05 0.0006310362 0.0002934523
## geneID Count
## GO:0032143 MSH6/MSH2 2
## GO:0019902 MAPK8/PTK2/MAPK1/BCL2/CTNNB1/PXN 6
## GO:0016538 CDKN1A/CCNE2/CCND1/CASP3 4
## GO:0001221 ETS1/FOXO3/EZH2/MYC/CTNNB1 5
## GO:0140297 ETS1/ARID1A/PARP1/NCOA3/YAP1/BCL2/MYC/CTNNB1 8
## GO:0005123 BID/CASP8/CASP3 3
## ID Description GeneRatio
## GO:0051402 GO:0051402 neuron apoptotic process 15/45
## GO:0043523 GO:0043523 regulation of neuron apoptotic process 13/45
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 13/45
## GO:0104004 GO:0104004 cellular response to environmental stimulus 13/45
## GO:0009411 GO:0009411 response to UV 10/45
## GO:0009314 GO:0009314 response to radiation 13/45
## BgRatio pvalue p.adjust qvalue
## GO:0051402 292/18888 1.093198e-16 2.908999e-13 1.264657e-13
## GO:0043523 244/18888 1.025006e-14 1.363771e-11 5.928853e-12
## GO:0071214 334/18888 5.749508e-13 3.824860e-10 1.662818e-10
## GO:0104004 334/18888 5.749508e-13 3.824860e-10 1.662818e-10
## GO:0009411 154/18888 2.414609e-12 1.285055e-09 5.586643e-10
## GO:0009314 431/18888 1.429178e-11 5.716190e-09 2.485054e-09
## geneID
## GO:0051402 XIAP/BID/FOXO3/ATM/CASP8/KRAS/PARP1/CCND1/BCL2/CASP3/BCL2L11/PIK3CA/MSH2/CTNNB1/G6PD
## GO:0043523 FOXO3/ATM/CASP8/KRAS/PARP1/CCND1/BCL2/CASP3/BCL2L11/PIK3CA/MSH2/CTNNB1/G6PD
## GO:0071214 MAPK8/CDKN1A/ATM/CASP8/PTEN/PARP1/IGF1R/RAB11B/YAP1/ITGA2/MYC/CASP3/PIK3CA
## GO:0104004 MAPK8/CDKN1A/ATM/CASP8/PTEN/PARP1/IGF1R/RAB11B/YAP1/ITGA2/MYC/CASP3/PIK3CA
## GO:0009411 MAPK8/CDKN1A/PARP1/CCND1/BCL2/MYC/CASP3/MSH6/MSH2/PRKAA1
## GO:0009314 MAPK8/CDKN1A/ATM/KRAS/PARP1/CCND1/YAP1/BCL2/MYC/CASP3/MSH6/MSH2/PRKAA1
## Count
## GO:0051402 15
## GO:0043523 13
## GO:0071214 13
## GO:0104004 13
## GO:0009411 10
## GO:0009314 13
## ID Description
## GO:0005925 GO:0005925 focal adhesion
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0030055 GO:0030055 cell-substrate junction
## GO:0032301 GO:0032301 MutSalpha complex
## GO:0005938 GO:0005938 cell cortex
## GO:0030027 GO:0030027 lamellipodium
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005925 8/45 421/19894 4.085587e-06 0.000230887 0.0001268965
## GO:0090571 3/45 15/19894 4.828225e-06 0.000230887 0.0001268965
## GO:0030055 8/45 431/19894 4.855524e-06 0.000230887 0.0001268965
## GO:0032301 2/45 2/19894 5.003142e-06 0.000230887 0.0001268965
## GO:0005938 7/45 309/19894 5.574616e-06 0.000230887 0.0001268965
## GO:0030027 6/45 203/19894 6.129745e-06 0.000230887 0.0001268965
## geneID Count
## GO:0005925 MYH9/KRAS/PTK2/MAPK1/ITGA2/CTNNB1/YWHAB/PXN 8
## GO:0090571 FOXO3/MYC/CTNNB1 3
## GO:0030055 MYH9/KRAS/PTK2/MAPK1/ITGA2/CTNNB1/YWHAB/PXN 8
## GO:0032301 MSH6/MSH2 2
## GO:0005938 MYH9/PTK2/ANLN/CDH1/CTNNB1/PXN/NF2 7
## GO:0030027 CASP8/PIK3CA/CDH1/CTNNB1/PXN/NF2 6
## ID Description GeneRatio BgRatio
## GO:0019903 GO:0019903 protein phosphatase binding 4/17 142/18522
## GO:0019902 GO:0019902 phosphatase binding 4/17 189/18522
## GO:0045294 GO:0045294 alpha-catenin binding 2/17 10/18522
## GO:0042826 GO:0042826 histone deacetylase binding 3/17 128/18522
## GO:0106310 GO:0106310 protein serine kinase activity 4/17 363/18522
## GO:0097718 GO:0097718 disordered domain specific binding 2/17 32/18522
## pvalue p.adjust qvalue geneID Count
## GO:0019903 7.292870e-06 0.001115809 0.0003224216 MAPK8/PTK2/CDH2/CTNNB1 4
## GO:0019902 2.252767e-05 0.001723367 0.0004979802 MAPK8/PTK2/CDH2/CTNNB1 4
## GO:0045294 3.552653e-05 0.001811853 0.0005235488 CDH2/CTNNB1 2
## GO:0042826 2.042216e-04 0.007811478 0.0022571866 HSPA1A/MAPK8/CCND1 3
## GO:0106310 2.821457e-04 0.008633658 0.0024947619 AKT1/MTOR/MAPK8/ATM 4
## GO:0097718 3.869583e-04 0.009867436 0.0028512715 HSPA1A/CTNNB1 2
## ID Description
## GO:0010632 GO:0010632 regulation of epithelial cell migration
## GO:0001667 GO:0001667 ameboidal-type cell migration
## GO:0010634 GO:0010634 positive regulation of epithelial cell migration
## GO:0010631 GO:0010631 epithelial cell migration
## GO:0090132 GO:0090132 epithelium migration
## GO:0035995 GO:0035995 detection of muscle stretch
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0010632 7/17 298/18888 3.853183e-09 4.231961e-06 1.410004e-06
## GO:0001667 8/17 498/18888 4.356110e-09 4.231961e-06 1.410004e-06
## GO:0010634 6/17 177/18888 7.067261e-09 4.577230e-06 1.525041e-06
## GO:0010631 7/17 375/18888 1.884459e-08 6.048023e-06 2.015079e-06
## GO:0090132 7/17 378/18888 1.990641e-08 6.048023e-06 2.015079e-06
## GO:0035995 3/17 7/18888 2.114819e-08 6.048023e-06 2.015079e-06
## geneID Count
## GO:0010632 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0001667 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2/CDH2 8
## GO:0010634 AKT1/MTOR/PTK2/ETS1/STAT5A/ITGA2 6
## GO:0010631 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0090132 AKT1/MTOR/PTEN/PTK2/ETS1/STAT5A/ITGA2 7
## GO:0035995 PTK2/CDH2/CTNNB1 3
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 6/17 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 6/17 431/19894
## GO:0005916 GO:0005916 fascia adherens 2/17 9/19894
## GO:0005938 GO:0005938 cell cortex 4/17 309/19894
## GO:0016327 GO:0016327 apicolateral plasma membrane 2/17 23/19894
## GO:0016342 GO:0016342 catenin complex 2/17 31/19894
## pvalue p.adjust qvalue
## GO:0005925 8.803502e-07 6.561649e-05 0.0000276280
## GO:0030055 1.009484e-06 6.561649e-05 0.0000276280
## GO:0005916 2.465588e-05 1.068421e-03 0.0004498616
## GO:0005938 1.157984e-04 3.763448e-03 0.0015846097
## GO:0016327 1.720609e-04 4.473583e-03 0.0018836140
## GO:0016342 3.149696e-04 6.824342e-03 0.0028734070
## geneID Count
## GO:0005925 HSPA1A/KRAS/PTK2/ITGA2/CDH2/CTNNB1 6
## GO:0030055 HSPA1A/KRAS/PTK2/ITGA2/CDH2/CTNNB1 6
## GO:0005916 CDH2/CTNNB1 2
## GO:0005938 AKT1/PTK2/CDH2/CTNNB1 4
## GO:0016327 CDH2/CTNNB1 2
## GO:0016342 CDH2/CTNNB1 2
## ID Description GeneRatio
## GO:0031625 GO:0031625 ubiquitin protein ligase binding 6/32
## GO:0044389 GO:0044389 ubiquitin-like protein ligase binding 6/32
## GO:0097718 GO:0097718 disordered domain specific binding 3/32
## GO:0043125 GO:0043125 ErbB-3 class receptor binding 2/32
## GO:0043559 GO:0043559 insulin binding 2/32
## GO:0120283 GO:0120283 protein serine/threonine kinase binding 2/32
## BgRatio pvalue p.adjust qvalue
## GO:0031625 305/18522 1.199145e-05 0.001377779 0.0006250221
## GO:0044389 324/18522 1.688917e-05 0.001377779 0.0006250221
## GO:0097718 32/18522 2.245578e-05 0.001377779 0.0006250221
## GO:0043125 5/18522 2.882383e-05 0.001377779 0.0006250221
## GO:0043559 5/18522 2.882383e-05 0.001377779 0.0006250221
## GO:0120283 7/18522 6.039943e-05 0.002405911 0.0010914283
## geneID Count
## GO:0031625 RB1/BID/TUBA1B/CDKN1B/ERBB3/SQSTM1 6
## GO:0044389 RB1/BID/TUBA1B/CDKN1B/ERBB3/SQSTM1 6
## GO:0097718 RB1/NCOA3/GAPDH 3
## GO:0043125 PIK3R1/ERBB3 2
## GO:0043559 PIK3R1/IGF1R 2
## GO:0120283 XIAP/MAPK8 2
## ID Description
## GO:0051402 GO:0051402 neuron apoptotic process
## GO:0030099 GO:0030099 myeloid cell differentiation
## GO:0000082 GO:0000082 G1/S transition of mitotic cell cycle
## GO:0044843 GO:0044843 cell cycle G1/S phase transition
## GO:2000045 GO:2000045 regulation of G1/S transition of mitotic cell cycle
## GO:0044772 GO:0044772 mitotic cell cycle phase transition
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0051402 9/32 292/18888 9.160194e-10 1.425549e-06 8.355391e-07
## GO:0030099 10/32 439/18888 1.696073e-09 1.425549e-06 8.355391e-07
## GO:0000082 7/32 234/18888 1.058757e-07 5.932567e-05 3.477180e-05
## GO:0044843 7/32 262/18888 2.282663e-07 9.592890e-05 5.622559e-05
## GO:2000045 6/32 185/18888 5.969420e-07 1.768895e-04 1.036780e-04
## GO:0044772 8/32 451/18888 6.313724e-07 1.768895e-04 1.036780e-04
## geneID Count
## GO:0051402 RB1/XIAP/BID/CCND1/BCL2L11/ERBB3/FOXO3/G6PD/GAPDH 9
## GO:0030099 RB1/ETS1/PIK3R1/MYH9/FOXO3/GAB2/MYC/G6PD/RBM15/FASN 10
## GO:0000082 RB1/ARID1A/BID/CCND1/CDKN1B/MYC/EIF4G1 7
## GO:0044843 RB1/ARID1A/BID/CCND1/CDKN1B/MYC/EIF4G1 7
## GO:2000045 RB1/ARID1A/BID/CCND1/CDKN1B/EIF4G1 6
## GO:0044772 RB1/ARID1A/BID/CCND1/CHEK1/CDKN1B/MYC/EIF4G1 8
## ID
## GO:0017053 GO:0017053
## GO:0090571 GO:0090571
## GO:0016514 GO:0016514
## GO:0061695 GO:0061695
## GO:0016235 GO:0016235
## GO:1902911 GO:1902911
## Description
## GO:0017053 transcription repressor complex
## GO:0090571 RNA polymerase II transcription repressor complex
## GO:0016514 SWI/SNF complex
## GO:0061695 transferase complex, transferring phosphorus-containing groups
## GO:0016235 aggresome
## GO:1902911 protein kinase complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0017053 3/32 77/19894 0.0002550520 0.02117190 0.01203182
## GO:0090571 2/32 15/19894 0.0002597779 0.02117190 0.01203182
## GO:0016514 2/32 30/19894 0.0010601339 0.04703569 0.02673000
## GO:0061695 4/32 308/19894 0.0014393257 0.04703569 0.02673000
## GO:0016235 2/32 35/19894 0.0014428125 0.04703569 0.02673000
## GO:1902911 3/32 150/19894 0.0017752047 0.04755952 0.02702769
## geneID Count
## GO:0017053 CCND1/FOXO3/MYC 3
## GO:0090571 FOXO3/MYC 2
## GO:0016514 RB1/ARID1A 2
## GO:0061695 RB1/CCND1/PIK3R1/IGF1R 4
## GO:0016235 EEF2/SQSTM1 2
## GO:1902911 RB1/CCND1/IGF1R 3
## ID Description GeneRatio
## GO:0140313 GO:0140313 molecular sequestering activity 6/52
## GO:0019903 GO:0019903 protein phosphatase binding 8/52
## GO:0001221 GO:0001221 transcription coregulator binding 7/52
## GO:0019902 GO:0019902 phosphatase binding 8/52
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 11/52
## GO:0031625 GO:0031625 ubiquitin protein ligase binding 9/52
## BgRatio pvalue p.adjust qvalue
## GO:0140313 49/18522 4.635728e-09 9.335950e-07 4.228370e-07
## GO:0019903 142/18522 5.540623e-09 9.335950e-07 4.228370e-07
## GO:0001221 114/18522 2.956987e-08 3.321682e-06 1.504432e-06
## GO:0019902 189/18522 5.195320e-08 4.377057e-06 1.982425e-06
## GO:0140297 478/18522 7.007675e-08 4.723173e-06 2.139185e-06
## GO:0031625 305/18522 1.564085e-07 8.784942e-06 3.978812e-06
## geneID Count
## GO:0140313 YWHAZ/CDKN1A/CAV1/STAT3/SQSTM1/LCN2 6
## GO:0019903 MET/BCL2/CDKN1B/MAPK8/PTK2/EGFR/STAT3/CTNNB1 8
## GO:0001221 ESR1/MYC/EZH2/ETS1/FOXO3/GATA3/CTNNB1 7
## GO:0019902 MET/BCL2/CDKN1B/MAPK8/PTK2/EGFR/STAT3/CTNNB1 8
## GO:0140297 ESR1/BCL2/MYC/JUN/ETS1/ARID1A/YWHAZ/NCOA3/STAT3/GATA3/CTNNB1 11
## GO:0031625 BCL2/CDKN1B/JUN/BID/YWHAZ/CDKN1A/EGFR/SQSTM1/CTNNB1 9
## ID
## GO:0032355 GO:0032355
## GO:0048872 GO:0048872
## GO:1902893 GO:1902893
## GO:0061614 GO:0061614
## GO:0044772 GO:0044772
## GO:0043491 GO:0043491
## Description
## GO:0032355 response to estradiol
## GO:0048872 homeostasis of number of cells
## GO:1902893 regulation of miRNA transcription
## GO:0061614 miRNA transcription
## GO:0044772 mitotic cell cycle phase transition
## GO:0043491 phosphatidylinositol 3-kinase/protein kinase B signal transduction
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0032355 12/52 115/18888 2.424244e-16 7.435156e-13 3.299524e-13
## GO:0048872 15/52 322/18888 5.472674e-15 8.392346e-12 3.724299e-12
## GO:1902893 9/52 75/18888 4.794693e-13 4.161603e-10 1.846808e-10
## GO:0061614 9/52 76/18888 5.427588e-13 4.161603e-10 1.846808e-10
## GO:0044772 15/52 451/18888 7.411126e-13 4.545985e-10 2.017386e-10
## GO:0043491 13/52 299/18888 1.104312e-12 5.644877e-10 2.505046e-10
## geneID
## GO:0032355 ESR1/ERRFI1/IGF1R/CDKN1B/EZH2/NCOA3/EGFR/CASP3/STAT3/IGFBP2/ITGA2/CTNNB1
## GO:0048872 BAP1/G6PD/BCL2/KRAS/AKT1/BCL2L11/EZH2/XIAP/ETS1/FOXO3/AXL/CASP3/ANXA1/STAT3/GATA3
## GO:1902893 ESR1/NOTCH3/MYC/JUN/ETS1/FOXO3/EGFR/STAT3/GATA3
## GO:0061614 ESR1/NOTCH3/MYC/JUN/ETS1/FOXO3/EGFR/STAT3/GATA3
## GO:0044772 BCL2/CCND1/AKT1/PTEN/CDKN1B/MYC/EZH2/ARID1A/BID/CHEK1/CDKN1A/EGFR/FOXM1/CCNE2/RAD50
## GO:0043491 ERRFI1/AKT1/IGF1R/PTEN/IRS1/FN1/AXL/PTK2/EGFR/STAT3/RET/GAB2/GATA3
## Count
## GO:0032355 12
## GO:0048872 15
## GO:1902893 9
## GO:0061614 9
## GO:0044772 15
## GO:0043491 13
## ID Description
## GO:0005925 GO:0005925 focal adhesion
## GO:0030055 GO:0030055 cell-substrate junction
## GO:0070435 GO:0070435 Shc-EGFR complex
## GO:0090571 GO:0090571 RNA polymerase II transcription repressor complex
## GO:0005899 GO:0005899 insulin receptor complex
## GO:1902911 GO:1902911 protein kinase complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005925 9/52 421/19894 1.284721e-06 0.0001574755 9.601165e-05
## GO:0030055 9/52 431/19894 1.559164e-06 0.0001574755 9.601165e-05
## GO:0070435 2/52 2/19894 6.701178e-06 0.0003785405 2.307933e-04
## GO:0090571 3/52 15/19894 7.495851e-06 0.0003785405 2.307933e-04
## GO:0005899 2/52 4/19894 4.007244e-05 0.0014074824 8.581315e-04
## GO:1902911 5/52 150/19894 4.452637e-05 0.0014074824 8.581315e-04
## geneID Count
## GO:0005925 KRAS/SHC1/YWHAZ/PTK2/EGFR/CAV1/ANXA1/ITGA2/CTNNB1 9
## GO:0030055 KRAS/SHC1/YWHAZ/PTK2/EGFR/CAV1/ANXA1/ITGA2/CTNNB1 9
## GO:0070435 SHC1/EGFR 2
## GO:0090571 MYC/FOXO3/CTNNB1 3
## GO:0005899 IGF1R/IRS1 2
## GO:1902911 CCND1/IGF1R/IRS1/CDKN1A/CCNE2 5
## ID Description GeneRatio
## GO:0106310 GO:0106310 protein serine kinase activity 5/25
## GO:0004707 GO:0004707 MAP kinase activity 2/25
## GO:0004674 GO:0004674 protein serine/threonine kinase activity 5/25
## GO:0070064 GO:0070064 proline-rich region binding 2/25
## GO:0019887 GO:0019887 protein kinase regulator activity 4/25
## GO:0019207 GO:0019207 kinase regulator activity 4/25
## BgRatio pvalue p.adjust qvalue
## GO:0106310 363/18522 0.0001081824 0.009276705 0.003999475
## GO:0004707 16/18522 0.0002074657 0.009276705 0.003999475
## GO:0004674 427/18522 0.0002308630 0.009276705 0.003999475
## GO:0070064 17/18522 0.0002349333 0.009276705 0.003999475
## GO:0019887 232/18522 0.0002467209 0.009276705 0.003999475
## GO:0019207 270/18522 0.0004388388 0.013750282 0.005928173
## geneID Count
## GO:0106310 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004707 MAPK8/MAPK1 2
## GO:0004674 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0070064 CCND1/YAP1 2
## GO:0019887 AKT1/CDKN1A/CCND1/ERBB3 4
## GO:0019207 AKT1/CDKN1A/CCND1/ERBB3 4
## ID Description GeneRatio
## GO:0010631 GO:0010631 epithelial cell migration 9/25
## GO:0090132 GO:0090132 epithelium migration 9/25
## GO:0090130 GO:0090130 tissue migration 9/25
## GO:0062197 GO:0062197 cellular response to chemical stress 8/25
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/25
## GO:0104004 GO:0104004 cellular response to environmental stimulus 8/25
## BgRatio pvalue p.adjust qvalue
## GO:0010631 375/18888 6.722030e-10 5.409962e-07 2.240955e-07
## GO:0090132 378/18888 7.210613e-10 5.409962e-07 2.240955e-07
## GO:0090130 383/18888 8.094706e-10 5.409962e-07 2.240955e-07
## GO:0062197 311/18888 4.187089e-09 2.098778e-06 8.693718e-07
## GO:0071214 334/18888 7.318853e-09 2.302844e-06 9.539015e-07
## GO:0104004 334/18888 7.318853e-09 2.302844e-06 9.539015e-07
## geneID Count
## GO:0010631 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090130 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0062197 HSPA1A/AKT1/MTOR/MAPK8/FOXO3/ATM/MAPK1/G6PD 8
## GO:0071214 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## GO:0104004 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 7/25 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 7/25 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/25 4/19894
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 4/25 161/19894
## GO:0070938 GO:0070938 contractile ring 2/25 10/19894
## GO:0098562 GO:0098562 cytoplasmic side of membrane 4/25 199/19894
## pvalue p.adjust qvalue
## GO:0005925 6.252929e-07 4.794154e-05 2.735114e-05
## GO:0030055 7.319319e-07 4.794154e-05 2.735114e-05
## GO:0005826 9.082603e-06 3.966070e-04 2.262684e-04
## GO:0009898 4.578147e-05 1.499343e-03 8.553907e-04
## GO:0070938 6.780516e-05 1.776495e-03 1.013509e-03
## GO:0098562 1.042248e-04 2.275574e-03 1.298238e-03
## geneID Count
## GO:0005925 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0030055 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0005826 MYH9/ANLN 2
## GO:0009898 MYH9/PTEN/KRAS/G6PD 4
## GO:0070938 MYH9/ANLN 2
## GO:0098562 MYH9/PTEN/KRAS/G6PD 4
## ID Description GeneRatio
## GO:0106310 GO:0106310 protein serine kinase activity 5/25
## GO:0004707 GO:0004707 MAP kinase activity 2/25
## GO:0004674 GO:0004674 protein serine/threonine kinase activity 5/25
## GO:0070064 GO:0070064 proline-rich region binding 2/25
## GO:0042826 GO:0042826 histone deacetylase binding 3/25
## GO:0045296 GO:0045296 cadherin binding 4/25
## BgRatio pvalue p.adjust qvalue
## GO:0106310 363/18522 0.0001081824 0.01192286 0.004945963
## GO:0004707 16/18522 0.0002074657 0.01192286 0.004945963
## GO:0004674 427/18522 0.0002308630 0.01192286 0.004945963
## GO:0070064 17/18522 0.0002349333 0.01192286 0.004945963
## GO:0042826 128/18522 0.0006634074 0.01766587 0.007328335
## GO:0045296 333/18522 0.0009629296 0.01766587 0.007328335
## geneID Count
## GO:0106310 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0004707 MAPK8/MAPK1 2
## GO:0004674 AKT1/MTOR/MAPK8/ATM/MAPK1 5
## GO:0070064 CCND1/YAP1 2
## GO:0042826 HSPA1A/MAPK8/CCND1 3
## GO:0045296 HSPA1A/MYH9/ANLN/FASN 4
## ID Description GeneRatio BgRatio
## GO:0010631 GO:0010631 epithelial cell migration 9/25 375/18888
## GO:0090132 GO:0090132 epithelium migration 9/25 378/18888
## GO:0090130 GO:0090130 tissue migration 9/25 383/18888
## GO:0030099 GO:0030099 myeloid cell differentiation 9/25 439/18888
## GO:0062197 GO:0062197 cellular response to chemical stress 8/25 311/18888
## GO:0071214 GO:0071214 cellular response to abiotic stimulus 8/25 334/18888
## pvalue p.adjust qvalue
## GO:0010631 6.722030e-10 5.415358e-07 2.272198e-07
## GO:0090132 7.210613e-10 5.415358e-07 2.272198e-07
## GO:0090130 8.094706e-10 5.415358e-07 2.272198e-07
## GO:0030099 2.679241e-09 1.344309e-06 5.640507e-07
## GO:0062197 4.187089e-09 1.680697e-06 7.051939e-07
## GO:0071214 7.318853e-09 2.016998e-06 8.463004e-07
## geneID Count
## GO:0010631 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090132 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0090130 AKT1/MTOR/MYH9/PTEN/PTK2/ETS1/STAT5A/ANLN/ITGA2 9
## GO:0030099 HSPA1A/MTOR/MYH9/FOXO3/CASP8/ETS1/STAT5A/G6PD/FASN 9
## GO:0062197 HSPA1A/AKT1/MTOR/MAPK8/FOXO3/ATM/MAPK1/G6PD 8
## GO:0071214 MTOR/MAPK8/CDKN1A/ATM/CASP8/PTEN/YAP1/ITGA2 8
## ID Description GeneRatio BgRatio
## GO:0005925 GO:0005925 focal adhesion 7/25 421/19894
## GO:0030055 GO:0030055 cell-substrate junction 7/25 431/19894
## GO:0005826 GO:0005826 actomyosin contractile ring 2/25 4/19894
## GO:0009898 GO:0009898 cytoplasmic side of plasma membrane 4/25 161/19894
## GO:0070938 GO:0070938 contractile ring 2/25 10/19894
## GO:0098562 GO:0098562 cytoplasmic side of membrane 4/25 199/19894
## pvalue p.adjust qvalue
## GO:0005925 6.252929e-07 4.757557e-05 2.696591e-05
## GO:0030055 7.319319e-07 4.757557e-05 2.696591e-05
## GO:0005826 9.082603e-06 3.935795e-04 2.230815e-04
## GO:0009898 4.578147e-05 1.487898e-03 8.433429e-04
## GO:0070938 6.780516e-05 1.762934e-03 9.992340e-04
## GO:0098562 1.042248e-04 2.258203e-03 1.279953e-03
## geneID Count
## GO:0005925 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0030055 HSPA1A/MYH9/KRAS/PTK2/MAPK1/ITGA2/TGM2 7
## GO:0005826 MYH9/ANLN 2
## GO:0009898 MYH9/PTEN/KRAS/G6PD 4
## GO:0070938 MYH9/ANLN 2
## GO:0098562 MYH9/PTEN/KRAS/G6PD 4
## ID Description GeneRatio
## GO:0031625 GO:0031625 ubiquitin protein ligase binding 6/29
## GO:0140297 GO:0140297 DNA-binding transcription factor binding 7/29
## GO:0044389 GO:0044389 ubiquitin-like protein ligase binding 6/29
## GO:0097718 GO:0097718 disordered domain specific binding 3/29
## GO:0043559 GO:0043559 insulin binding 2/29
## GO:0120283 GO:0120283 protein serine/threonine kinase binding 2/29
## BgRatio pvalue p.adjust qvalue
## GO:0031625 305/18522 6.552559e-06 0.0005737005 0.0002597399
## GO:0140297 478/18522 6.958424e-06 0.0005737005 0.0002597399
## GO:0044389 324/18522 9.253234e-06 0.0005737005 0.0002597399
## GO:0097718 32/18522 1.660139e-05 0.0007719648 0.0003495030
## GO:0043559 5/18522 2.360135e-05 0.0008779703 0.0003974965
## GO:0120283 7/18522 4.946657e-05 0.0015293667 0.0006924128
## geneID Count
## GO:0031625 RB1/BID/CDKN1A/CASP8/TUBA1B/CTNNB1 6
## GO:0140297 RB1/ETS1/ARID1A/NCOA3/YAP1/CTNNB1/VHL 7
## GO:0044389 RB1/BID/CDKN1A/CASP8/TUBA1B/CTNNB1 6
## GO:0097718 RB1/NCOA3/CTNNB1 3
## GO:0043559 PIK3R1/IGF1R 2
## GO:0120283 XIAP/MAPK8 2
## ID Description
## GO:0051402 GO:0051402 neuron apoptotic process
## GO:0030099 GO:0030099 myeloid cell differentiation
## GO:0071214 GO:0071214 cellular response to abiotic stimulus
## GO:0104004 GO:0104004 cellular response to environmental stimulus
## GO:1901990 GO:1901990 regulation of mitotic cell cycle phase transition
## GO:0002573 GO:0002573 myeloid leukocyte differentiation
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0051402 8/29 292/18888 9.600031e-09 1.111329e-05 5.174450e-06
## GO:0030099 9/29 439/18888 1.209281e-08 1.111329e-05 5.174450e-06
## GO:0071214 8/29 334/18888 2.730658e-08 1.254737e-05 5.842171e-06
## GO:0104004 8/29 334/18888 2.730658e-08 1.254737e-05 5.842171e-06
## GO:1901990 8/29 356/18888 4.473172e-08 1.644338e-05 7.656186e-06
## GO:0002573 7/29 239/18888 5.856733e-08 1.794113e-05 8.353551e-06
## geneID Count
## GO:0051402 RB1/XIAP/BID/FOXO3/ATM/CASP8/CCND1/CTNNB1 8
## GO:0030099 RB1/ETS1/MYH9/FOXO3/CASP8/PIK3R1/GAB2/FASN/CTNNB1 9
## GO:0071214 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:0104004 MAPK8/CDKN1A/ATM/CASP8/PIK3R1/CHEK1/IGF1R/YAP1 8
## GO:1901990 RB1/ARID1A/BID/CDKN1A/ATM/CCND1/CHEK1/ANLN 8
## GO:0002573 RB1/MYH9/CASP8/PIK3R1/GAB2/FASN/CTNNB1 7
## ID
## GO:0005826 GO:0005826
## GO:1902911 GO:1902911
## GO:0000307 GO:0000307
## GO:0061695 GO:0061695
## GO:0070938 GO:0070938
## GO:0017053 GO:0017053
## Description
## GO:0005826 actomyosin contractile ring
## GO:1902911 protein kinase complex
## GO:0000307 cyclin-dependent protein kinase holoenzyme complex
## GO:0061695 transferase complex, transferring phosphorus-containing groups
## GO:0070938 contractile ring
## GO:0017053 transcription repressor complex
## GeneRatio BgRatio pvalue p.adjust qvalue
## GO:0005826 2/29 4/19894 1.228849e-05 0.002150486 0.001164173
## GO:1902911 4/29 150/19894 6.367879e-05 0.003208261 0.001736803
## GO:0000307 3/29 56/19894 7.329106e-05 0.003208261 0.001736803
## GO:0061695 5/29 308/19894 7.536722e-05 0.003208261 0.001736803
## GO:0070938 2/29 10/19894 9.166460e-05 0.003208261 0.001736803
## GO:0017053 3/29 77/19894 1.894704e-04 0.004993295 0.002703137
## geneID Count
## GO:0005826 MYH9/ANLN 2
## GO:1902911 RB1/CDKN1A/CCND1/IGF1R 4
## GO:0000307 RB1/CDKN1A/CCND1 3
## GO:0061695 RB1/CDKN1A/CCND1/PIK3R1/IGF1R 5
## GO:0070938 MYH9/ANLN 2
## GO:0017053 FOXO3/CCND1/CTNNB1 3barplot(ego_MF[[1]], title = "enrichGO, Molecular Function, Bicluster 1 of 1")
barplot(ego_MF[[2]], title = "enrichGO, Molecular Function, Bicluster 1 of 2")
barplot(ego_MF[[3]], title = "enrichGO, Molecular Function, Bicluster 2 of 2")
barplot(ego_MF[[4]], title = "enrichGO, Molecular Function, Bicluster 1 of 3")
barplot(ego_MF[[5]], title = "enrichGO, Molecular Function, Bicluster 2 of 3")
barplot(ego_MF[[6]], title = "enrichGO, Molecular Function, Bicluster 3 of 3")
barplot(ego_MF[[7]], title = "enrichGO, Molecular Function, Bicluster 1 of 5")
barplot(ego_MF[[8]], title = "enrichGO, Molecular Function, Bicluster 2 of 5")
barplot(ego_MF[[9]], title = "enrichGO, Molecular Function, Bicluster 3 of 5")
barplot(ego_MF[[10]], title = "enrichGO, Molecular Function, Bicluster 4 of 5")
barplot(ego_MF[[11]], title = "enrichGO, Molecular Function, Bicluster 5 of 5")
barplot(ego_MF[[12]], title = "enrichGO, Molecular Function, Bicluster 1 of 10")
barplot(ego_MF[[13]], title = "enrichGO, Molecular Function, Bicluster 2 of 10")
barplot(ego_MF[[14]], title = "enrichGO, Molecular Function, Bicluster 3 of 10")
barplot(ego_MF[[15]], title = "enrichGO, Molecular Function, Bicluster 4 of 10")
barplot(ego_MF[[16]], title = "enrichGO, Molecular Function, Bicluster 5 of 10")
barplot(ego_MF[[17]], title = "enrichGO, Molecular Function, Bicluster 6 of 10")
barplot(ego_MF[[18]], title = "enrichGO, Molecular Function, Bicluster 7 of 10")
barplot(ego_MF[[19]], title = "enrichGO, Molecular Function, Bicluster 8 of 10")
barplot(ego_MF[[20]], title = "enrichGO, Molecular Function, Bicluster 9 of 10")
barplot(ego_MF[[21]], title = "enrichGO, Molecular Function, Bicluster 10 of 10")
barplot(ego_BP[[1]], title = "enrichGO, Biological Process, Bicluster 1 of 1")
barplot(ego_BP[[2]], title = "enrichGO, Biological Process, Bicluster 1 of 2")
barplot(ego_BP[[3]], title = "enrichGO, Biological Process, Bicluster 2 of 2")
barplot(ego_BP[[4]], title = "enrichGO, Biological Process, Bicluster 1 of 3")
barplot(ego_BP[[5]], title = "enrichGO, Biological Process, Bicluster 2 of 3")
barplot(ego_BP[[6]], title = "enrichGO, Biological Process, Bicluster 3 of 3")
barplot(ego_BP[[7]], title = "enrichGO, Biological Process, Bicluster 1 of 5")
barplot(ego_BP[[8]], title = "enrichGO, Biological Process, Bicluster 2 of 5")
barplot(ego_BP[[9]], title = "enrichGO, Biological Process, Bicluster 3 of 5")
barplot(ego_BP[[10]], title = "enrichGO, Biological Process, Bicluster 4 of 5")
barplot(ego_BP[[11]], title = "enrichGO, Biological Process, Bicluster 5 of 5")
barplot(ego_BP[[12]], title = "enrichGO, Biological Process, Bicluster 1 of 10")
barplot(ego_BP[[13]], title = "enrichGO, Biological Process, Bicluster 2 of 10")
barplot(ego_BP[[14]], title = "enrichGO, Biological Process, Bicluster 3 of 10")
barplot(ego_BP[[15]], title = "enrichGO, Biological Process, Bicluster 4 of 10")
barplot(ego_BP[[16]], title = "enrichGO, Biological Process, Bicluster 5 of 10")
barplot(ego_BP[[17]], title = "enrichGO, Biological Process, Bicluster 6 of 10")
barplot(ego_BP[[18]], title = "enrichGO, Biological Process, Bicluster 7 of 10")
barplot(ego_BP[[19]], title = "enrichGO, Biological Process, Bicluster 8 of 10")
barplot(ego_BP[[20]], title = "enrichGO, Biological Process, Bicluster 9 of 10")
barplot(ego_BP[[21]], title = "enrichGO, Biological Process, Bicluster 10 of 10")
barplot(ego_CC[[1]], title = "enrichGO, Cellular Component, Bicluster 1 of 1")
barplot(ego_CC[[2]], title = "enrichGO, Cellular Component, Bicluster 1 of 2")
barplot(ego_CC[[3]], title = "enrichGO, Cellular Component, Bicluster 2 of 2")
barplot(ego_CC[[4]], title = "enrichGO, Cellular Component, Bicluster 1 of 3")
barplot(ego_CC[[5]], title = "enrichGO, Cellular Component, Bicluster 2 of 3")
barplot(ego_CC[[6]], title = "enrichGO, Cellular Component, Bicluster 3 of 3")
barplot(ego_CC[[7]], title = "enrichGO, Cellular Component, Bicluster 1 of 5")
barplot(ego_CC[[8]], title = "enrichGO, Cellular Component, Bicluster 2 of 5")
barplot(ego_CC[[9]], title = "enrichGO, Cellular Component, Bicluster 3 of 5")
barplot(ego_CC[[10]], title = "enrichGO, Cellular Component, Bicluster 4 of 5")
barplot(ego_CC[[11]], title = "enrichGO, Cellular Component, Bicluster 5 of 5")
barplot(ego_CC[[12]], title = "enrichGO, Cellular Component, Bicluster 1 of 10")
barplot(ego_CC[[13]], title = "enrichGO, Cellular Component, Bicluster 2 of 10")
barplot(ego_CC[[14]], title = "enrichGO, Cellular Component, Bicluster 3 of 10")
barplot(ego_CC[[15]], title = "enrichGO, Cellular Component, Bicluster 4 of 10")
barplot(ego_CC[[16]], title = "enrichGO, Cellular Component, Bicluster 5 of 10")
barplot(ego_CC[[17]], title = "enrichGO, Cellular Component, Bicluster 6 of 10")
barplot(ego_CC[[18]], title = "enrichGO, Cellular Component, Bicluster 7 of 10")
barplot(ego_CC[[19]], title = "enrichGO, Cellular Component, Bicluster 8 of 10")
barplot(ego_CC[[20]], title = "enrichGO, Cellular Component, Bicluster 9 of 10")
barplot(ego_CC[[21]], title = "enrichGO, Cellular Component, Bicluster 10 of 10")
DAG plots for ego
goplot(ego_MF[[1]]) + labs(title = "enrichGO, Molecular Function, Bicluster 1 of 1")
goplot(ego_MF[[2]]) + labs(title = "enrichGO, Molecular Function, Bicluster 1 of 2")
goplot(ego_MF[[3]]) + labs(title = "enrichGO, Molecular Function, Bicluster 2 of 2")
goplot(ego_MF[[4]]) + labs(title = "enrichGO, Molecular Function, Bicluster 1 of 3")
goplot(ego_MF[[5]]) + labs(title = "enrichGO, Molecular Function, Bicluster 2 of 3")
goplot(ego_MF[[6]]) + labs(title = "enrichGO, Molecular Function, Bicluster 3 of 3")
goplot(ego_MF[[7]]) + labs(title = "enrichGO, Molecular Function, Bicluster 1 of 5")
goplot(ego_MF[[8]]) + labs(title = "enrichGO, Molecular Function, Bicluster 2 of 5")
goplot(ego_MF[[9]]) + labs(title = "enrichGO, Molecular Function, Bicluster 3 of 5")
goplot(ego_MF[[10]]) + labs(title = "enrichGO, Molecular Function, Bicluster 4 of 5")
goplot(ego_MF[[11]]) + labs(title = "enrichGO, Molecular Function, Bicluster 5 of 5")
goplot(ego_MF[[12]]) + labs(title = "enrichGO, Molecular Function, Bicluster 1 of 10")
goplot(ego_MF[[13]]) + labs(title = "enrichGO, Molecular Function, Bicluster 2 of 10")
goplot(ego_MF[[14]]) + labs(title = "enrichGO, Molecular Function, Bicluster 3 of 10")
goplot(ego_MF[[15]]) + labs(title = "enrichGO, Molecular Function, Bicluster 4 of 10")
goplot(ego_MF[[16]]) + labs(title = "enrichGO, Molecular Function, Bicluster 5 of 10")
goplot(ego_MF[[17]]) + labs(title = "enrichGO, Molecular Function, Bicluster 6 of 10")
goplot(ego_MF[[18]]) + labs(title = "enrichGO, Molecular Function, Bicluster 7 of 10")
goplot(ego_MF[[19]]) + labs(title = "enrichGO, Molecular Function, Bicluster 8 of 10")
goplot(ego_MF[[20]]) + labs(title = "enrichGO, Molecular Function, Bicluster 9 of 10")
goplot(ego_MF[[21]]) + labs(title = "enrichGO, Molecular Function, Bicluster 10 of 10")
goplot(ego_BP[[1]]) + labs(title = "enrichGO, Biological Process, Bicluster 1 of 1")
goplot(ego_BP[[2]]) + labs(title = "enrichGO, Biological Process, Bicluster 1 of 2")
goplot(ego_BP[[3]]) + labs(title = "enrichGO, Biological Process, Bicluster 2 of 2")
goplot(ego_BP[[4]]) + labs(title = "enrichGO, Biological Process, Bicluster 1 of 3")
goplot(ego_BP[[5]]) + labs(title = "enrichGO, Biological Process, Bicluster 2 of 3")
goplot(ego_BP[[6]]) + labs(title = "enrichGO, Biological Process, Bicluster 3 of 3")## Warning: ggrepel: 22 unlabeled data points (too many overlaps). Consider
## increasing max.overlaps
goplot(ego_BP[[7]]) + labs(title = "enrichGO, Biological Process, Bicluster 1 of 5")
goplot(ego_BP[[8]]) + labs(title = "enrichGO, Biological Process, Bicluster 2 of 5")
goplot(ego_BP[[9]]) + labs(title = "enrichGO, Biological Process, Bicluster 3 of 5")
goplot(ego_BP[[10]]) + labs(title = "enrichGO, Biological Process, Bicluster 4 of 5")## Warning: ggrepel: 4 unlabeled data points (too many overlaps). Consider
## increasing max.overlaps
goplot(ego_BP[[11]]) + labs(title = "enrichGO, Biological Process, Bicluster 5 of 5")## Warning: ggrepel: 7 unlabeled data points (too many overlaps). Consider
## increasing max.overlaps
goplot(ego_BP[[12]]) + labs(title = "enrichGO, Biological Process, Bicluster 1 of 10")
goplot(ego_BP[[13]]) + labs(title = "enrichGO, Biological Process, Bicluster 2 of 10")
goplot(ego_BP[[14]]) + labs(title = "enrichGO, Biological Process, Bicluster 3 of 10")
goplot(ego_BP[[15]]) + labs(title = "enrichGO, Biological Process, Bicluster 4 of 10")
goplot(ego_BP[[16]]) + labs(title = "enrichGO, Biological Process, Bicluster 5 of 10")
goplot(ego_BP[[17]]) + labs(title = "enrichGO, Biological Process, Bicluster 6 of 10")
goplot(ego_BP[[18]]) + labs(title = "enrichGO, Biological Process, Bicluster 7 of 10")## Warning: ggrepel: 22 unlabeled data points (too many overlaps). Consider
## increasing max.overlaps
goplot(ego_BP[[19]]) + labs(title = "enrichGO, Biological Process, Bicluster 8 of 10")
goplot(ego_BP[[20]]) + labs(title = "enrichGO, Biological Process, Bicluster 9 of 10")
goplot(ego_BP[[21]]) + labs(title = "enrichGO, Biological Process, Bicluster 10 of 10")
goplot(ego_CC[[1]]) + labs(title = "enrichGO, Cellular Component, Bicluster 1 of 1")
goplot(ego_CC[[2]]) + labs(title = "enrichGO, Cellular Component, Bicluster 1 of 2")
goplot(ego_CC[[3]]) + labs(title = "enrichGO, Cellular Component, Bicluster 2 of 2")
goplot(ego_CC[[4]]) + labs(title = "enrichGO, Cellular Component, Bicluster 1 of 3")
goplot(ego_CC[[5]]) + labs(title = "enrichGO, Cellular Component, Bicluster 2 of 3")
goplot(ego_CC[[6]]) + labs(title = "enrichGO, Cellular Component, Bicluster 3 of 3")
goplot(ego_CC[[7]]) + labs(title = "enrichGO, Cellular Component, Bicluster 1 of 5")
goplot(ego_CC[[8]]) + labs(title = "enrichGO, Cellular Component, Bicluster 2 of 5")
goplot(ego_CC[[9]]) + labs(title = "enrichGO, Cellular Component, Bicluster 3 of 5")
goplot(ego_CC[[10]]) + labs(title = "enrichGO, Cellular Component, Bicluster 4 of 5")
goplot(ego_CC[[11]]) + labs(title = "enrichGO, Cellular Component, Bicluster 5 of 5")
goplot(ego_CC[[12]]) + labs(title = "enrichGO, Cellular Component, Bicluster 1 of 10")
goplot(ego_CC[[13]]) + labs(title = "enrichGO, Cellular Component, Bicluster 2 of 10")
goplot(ego_CC[[14]]) + labs(title = "enrichGO, Cellular Component, Bicluster 3 of 10")
goplot(ego_CC[[15]]) + labs(title = "enrichGO, Cellular Component, Bicluster 4 of 10")
goplot(ego_CC[[16]]) + labs(title = "enrichGO, Cellular Component, Bicluster 5 of 10")
goplot(ego_CC[[17]]) + labs(title = "enrichGO, Cellular Component, Bicluster 6 of 10")
goplot(ego_CC[[18]]) + labs(title = "enrichGO, Cellular Component, Bicluster 7 of 10")
goplot(ego_CC[[19]]) + labs(title = "enrichGO, Cellular Component, Bicluster 8 of 10")
goplot(ego_CC[[20]]) + labs(title = "enrichGO, Cellular Component, Bicluster 9 of 10")
goplot(ego_CC[[21]]) + labs(title = "enrichGO, Cellular Component, Bicluster 10 of 10")
3. Export Pathway Analysis result to data
pathway = list("ggo_MF" = ggo_MF,
"ggo_BP" = ggo_BP,
"ggo_CC" = ggo_CC,
"ego_MF" = ego_MF,
"ego_BP" = ego_BP,
"ego_CC" = ego_CC)
saveRDS(pathway, file = "data/out_pathway/pathways_fabia_top_5_percent.rds")